Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5046466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 21
Found at i:4642521 original size:12 final size:10
Alignment explanation
Indices: 4642489--4642519 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
4642479 TTCATCACAC
4642489 CAAATTCTCT
1 CAAATTCTCT
4642499 CAAATTCTCT
1 CAAATTCTCT
*
4642509 CAAATACTCT
1 CAAATTCTCT
4642519 C
1 C
4642520 TCGTTTAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:4642597 original size:17 final size:18
Alignment explanation
Indices: 4642560--4642600 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
4642550 ATATTATGTA
*
4642560 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
4642578 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
4642595 TTTACT
1 TTTACT
4642601 AATATAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:4644865 original size:26 final size:24
Alignment explanation
Indices: 4644794--4644865 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
4644784 TTATATTTGT
4644794 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
*
4644819 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
4644841 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
4644866 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 10 0.27
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:4646388 original size:13 final size:14
Alignment explanation
Indices: 4646353--4646391 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
4646343 GGCCGGGTAT
4646353 ATATATATATATAA
1 ATATATATATATAA
*
4646367 AT-TAAATATATAA
1 ATATATATATATAA
4646380 ATAT-TATATATA
1 ATATATATATATA
4646392 TTTTTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 19 0.86
14 3 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATATATATATATAA
Found at i:4646446 original size:38 final size:38
Alignment explanation
Indices: 4646350--4646457 Score: 106
Period size: 38 Copynumber: 3.0 Consensus size: 38
4646340 TCGGGCCGGG
* *
4646350 TATATATATATATAT-A-AATTAAATATATAAATATTA
1 TATATATATATATATAATAATTAAATTTATTAATATTA
*
4646386 TATATAT-T-T-TTTAATTTAAATTAAATTTATTAATATTA
1 TATATATATATATATAA--T-AATTAAATTTATTAATATTA
4646424 TATATATATATATATAATAATT--ATTT-TTAATATT
1 TATATATATATATATAATAATTAAATTTATTAATATT
4646458 TATCAGATCG
Statistics
Matches: 60, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
33 2 0.03
34 2 0.03
35 9 0.15
36 11 0.18
38 29 0.48
39 2 0.03
40 1 0.02
41 4 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (38 bp):
TATATATATATATATAATAATTAAATTTATTAATATTA
Found at i:4653016 original size:12 final size:13
Alignment explanation
Indices: 4652994--4653022 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
4652984 AGAATTAACA
4652994 CATTGTGCATTTG
1 CATTGTGCATTTG
4653007 CATT-TGCATTTG
1 CATTGTGCATTTG
4653019 CATT
1 CATT
4653023 AGCTTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (13 bp):
CATTGTGCATTTG
Found at i:4659356 original size:233 final size:234
Alignment explanation
Indices: 4658775--4659417 Score: 930
Period size: 234 Copynumber: 2.8 Consensus size: 234
4658765 TTTATAAGTT
* * *
4658775 AAAAAATGAGAAAAGTTTCTCATTTAAATTTGAAAATTGAAATTTTTAAAAAGTAAGAAAAGTTT
1 AAAAAATGAGAAAGGTTTCTCATTTAAATTTGAAAATTGAAAATTTTGAAAAGTAAGAAAAGTTT
* * * * *
4658840 CTTACCTGGTAAACTATTTCCAAAATTAGTAAGTCCATCGGGCCATCAGTAAGTCTATCGAGCAT
66 CTTACATAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
* * ** *
4658905 GATGCTTAAATCCTTT-AGGTCATCTGTAAGTCTTTTGAGCAATACGATAAGTCCTTCGGGCCAT
131 GATGCTTAAAT-CTTTCAGGTCATCTGTAAGTCTTTCGAGCAAGATAATAAGTCATTCGGGCCAT
* *
4658969 CCATAAGACCTTTGGGCAGGATGTTTTCACATGTTTCTTC
195 CCATAAGACCTTCGGGCAGGATGTTTTCACATGTCTCTTC
* *
4659009 AAAAAATGAGAAAGGATTCTCATTTAAATTTGAAAATTGAAAATTTTGAAAAATAAGAAAAGTTT
1 AAAAAATGAGAAAGGTTTCTCATTTAAATTTGAAAATTGAAAATTTTGAAAAGTAAGAAAAGTTT
* * * * *
4659074 CTTACATAATAAACTATTTTCGAAATTGGTAAGTCCTTCGTGCCATCAGTAAGTCTTTCAAGCAT
66 CTTACATAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
* *
4659139 GATGTTTAAATCTTTCAGGTCATTTGTAAGTCTTTCGAGCAAGATAATAAGTCATTCGGGCCATC
131 GATGCTTAAATCTTTCAGGTCATCTGTAAGTCTTTCGAGCAAGATAATAAGTCATTCGGGCCATC
4659204 CATAAGACCTTCGGGCAGGATGTTTTCACATGTCTC-TC
196 CATAAGACCTTCGGGCAGGATGTTTTCACATGTCTCTTC
* ** * *
4659242 GATGAATGAGAAAGGTTTCTCATTTAAATCTGAAAATTAAAAATTTTGAAAAGTAAGAAAAGTTT
1 AAAAAATGAGAAAGGTTTCTCATTTAAATTTGAAAATTGAAAATTTTGAAAAGTAAGAAAAGTTT
*
4659307 CTTACTTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
66 CTTACATAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
* * * * * * *
4659372 GATACTTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATA
131 GATGCTTAAATCTTTCAGGTCATCTGTAAGTCTTTCGAGCAAGATA
4659418 CTTAAATCCT
Statistics
Matches: 362, Mismatches: 46, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
233 160 0.44
234 202 0.56
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (234 bp):
AAAAAATGAGAAAGGTTTCTCATTTAAATTTGAAAATTGAAAATTTTGAAAAGTAAGAAAAGTTT
CTTACATAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
GATGCTTAAATCTTTCAGGTCATCTGTAAGTCTTTCGAGCAAGATAATAAGTCATTCGGGCCATC
CATAAGACCTTCGGGCAGGATGTTTTCACATGTCTCTTC
Found at i:4659360 original size:20 final size:20
Alignment explanation
Indices: 4659335--4659408 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
4659325 TCCAAAATTG
4659335 GTAAGTCCTTCGGGCCATCA
1 GTAAGTCCTTCGGGCCATCA
* * *
4659355 GTAAGTCTTTCGAG-CATGATA
1 GTAAGTCCTTCGGGCCAT--CA
*
4659376 CTTAAGTCCTTCGGGCCATCA
1 -GTAAGTCCTTCGGGCCATCA
*
4659397 GTAAGTCTTTCG
1 GTAAGTCCTTCG
4659409 AGCATGATAC
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
19 3 0.07
20 22 0.54
21 2 0.05
22 11 0.27
23 3 0.07
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.31
Consensus pattern (20 bp):
GTAAGTCCTTCGGGCCATCA
Found at i:4659381 original size:22 final size:22
Alignment explanation
Indices: 4659356--4659422 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
4659346 GGGCCATCAG
4659356 TAAGTCTTTCGAGCATGATACT
1 TAAGTCTTTCGAGCATGATACT
* * * *
4659378 TAAGTCCTTCGGGC--CAT-CAG
1 TAAGTCTTTCGAGCATGATAC-T
4659398 TAAGTCTTTCGAGCATGATACT
1 TAAGTCTTTCGAGCATGATACT
4659420 TAA
1 TAA
4659423 ATCCTCCGGG
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
19 1 0.03
20 14 0.42
22 17 0.52
23 1 0.03
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (22 bp):
TAAGTCTTTCGAGCATGATACT
Found at i:4659383 original size:42 final size:42
Alignment explanation
Indices: 4659336--4659454 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
4659326 CCAAAATTGG
4659336 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATACT
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATACT
4659378 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATACT
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATACT
* * * * *
4659420 TAAATCCTCCGGGTCATCTGTAAGTCTTTCAAGCA
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
4659455 GGATGATAAG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (42 bp):
TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATACT
Found at i:4659622 original size:274 final size:275
Alignment explanation
Indices: 4659103--4659648 Score: 772
Period size: 274 Copynumber: 2.0 Consensus size: 275
4659093 TCGAAATTGG
* ** * * *
4659103 TAAGTCCTTCGTGCCATCAGTAAGTCTTTCAAGCATGATGTTTAAATCTTTCAGGTCATTTGTAA
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATACTTAAATCCTCCAGGTCATCTGTAA
* * *
4659168 GTCTTTCGAGCAAGATAATAAGTCATTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAC
66 GTCTTTCAAGCAAGATAATAAGTCATTCGGGCAATCCATAAGACATTCGGGCAGGATGTTTTCAC
* * ** * * * *
4659233 ATGTCTCTCGATGAATGAGAAAGGTTTCTCATTTAAATCTGAAAATTAAAAATTTTGAAAAGTAA
131 ATATCTCTCAAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATGAAAAATTTAGAAAAATAA
* *
4659298 GAAAAGTTTCTTACTTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCT
196 GAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGCTAAGTCCTTCGGGCCATCAGTAAGTCT
*
4659363 TTCGAGCATGATACT
261 CTCGAGCATGATACT
* *
4659378 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATACTTAAATCCTCCGGGTCATCTGTAA
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATACTTAAATCCTCCAGGTCATCTGTAA
* * * * * *
4659443 GTCTTTCAAGCAGGATGATAAGTCTTTTGGGTAATCCATAAGACATTTGGGCAGGATG-TTTCAC
66 GTCTTTCAAGCAAGATAATAAGTCATTCGGGCAATCCATAAGACATTCGGGCAGGATGTTTTCAC
* * *
4659507 ATATTTCTCAAAAAATGAGAAAATTTTCTCATTTAAATCTGAAAACTGAAATA-TTAGAAAAATA
131 ATATCTCTCAAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAA-TGAAAAATTTAGAAAAATA
* *
4659571 TGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGCTAAGTCCTTCGGGCCATTAGTAAGTC
195 AGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGCTAAGTCCTTCGGGCCATCAGTAAGTC
4659636 TCTCGAGCATGAT
260 TCTCGAGCATGAT
4659649 TATTAAATCC
Statistics
Matches: 237, Mismatches: 33, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
274 126 0.53
275 111 0.47
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (275 bp):
TAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATACTTAAATCCTCCAGGTCATCTGTAA
GTCTTTCAAGCAAGATAATAAGTCATTCGGGCAATCCATAAGACATTCGGGCAGGATGTTTTCAC
ATATCTCTCAAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATGAAAAATTTAGAAAAATAA
GAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGCTAAGTCCTTCGGGCCATCAGTAAGTCT
CTCGAGCATGATACT
Found at i:4662217 original size:17 final size:17
Alignment explanation
Indices: 4662195--4662233 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
4662185 TGAATCAAAT
4662195 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
4662212 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
4662229 -AATTA
1 TAATTA
4662234 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:4662720 original size:14 final size:15
Alignment explanation
Indices: 4662701--4662736 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
4662691 ATGCAACTTT
4662701 TTATTTTTC-TAAAA
1 TTATTTTTCTTAAAA
*
4662715 TTATTTTTCTTAACA
1 TTATTTTTCTTAAAA
4662730 TTATTTT
1 TTATTTT
4662737 AGAGGATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATTTTTCTTAAAA
Found at i:4667944 original size:11 final size:11
Alignment explanation
Indices: 4667914--4667950 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
4667904 AAAATTATTA
4667914 ATTATTTA-AT
1 ATTATTTATAT
4667924 A-TATTATATAT
1 ATTATT-TATAT
4667935 ATTATTTATAT
1 ATTATTTATAT
4667946 ATTAT
1 ATTAT
4667951 GCTAATATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.17
10 3 0.12
11 13 0.54
12 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTATTTATAT
Found at i:4668441 original size:11 final size:11
Alignment explanation
Indices: 4668425--4668451 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
4668415 AATATAGATG
4668425 ATTTTATTCAT
1 ATTTTATTCAT
4668436 ATTTTATTCAT
1 ATTTTATTCAT
4668447 ATTTT
1 ATTTT
4668452 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (11 bp):
ATTTTATTCAT
Found at i:4669349 original size:2 final size:2
Alignment explanation
Indices: 4669342--4669427 Score: 165
Period size: 2 Copynumber: 43.5 Consensus size: 2
4669332 ATCGAGATGG
4669342 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4669384 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4669425 AT A
1 AT A
4669428 AAATAAAAAG
Statistics
Matches: 83, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 82 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4669710 original size:19 final size:19
Alignment explanation
Indices: 4669656--4669701 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
4669646 AAAATATATA
4669656 TTGATTATAACTTAATTGT
1 TTGATTATAACTTAATTGT
4669675 TTGATTATAACTTAATTGT
1 TTGATTATAACTTAATTGT
4669694 TTGATTAT
1 TTGATTAT
4669702 TGATTAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.54
Consensus pattern (19 bp):
TTGATTATAACTTAATTGT
Found at i:4670346 original size:19 final size:18
Alignment explanation
Indices: 4670324--4670367 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
4670314 ATTAACTGAA
*
4670324 ATTATTAAATATTTGATAT
1 ATTATTAAATATAT-ATAT
*
4670343 ATTATATATATATATATAT
1 ATTAT-TAAATATATATAT
4670362 ATTATT
1 ATTATT
4670368 TAGCTTTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.05
19 14 0.64
20 7 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
ATTATTAAATATATATAT
Found at i:4678840 original size:52 final size:52
Alignment explanation
Indices: 4678782--4679544 Score: 1330
Period size: 52 Copynumber: 14.7 Consensus size: 52
4678772 TTCGCTCTCT
* *
4678782 TTTTCTTCAGGGAGTAGAACTCGAACGATAATCTTCCTACGAGACTGCCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAA
4678834 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAA
*
4678886 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGTCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAA
*
4678938 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGTCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAA
* *
4678990 TTTTCTTCAAGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGTCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAA
* * *
4679042 TTTTCTTCAGGGACTAGAACTCGAAAAATAATCTTCCTACGGGTCTGCCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAA
* * *
4679094 TTTTCTTCAAGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAA
4679146 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAA
*
4679198 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGTCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAA
4679250 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAA
*
4679302 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGTCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAA
* * *
4679354 TTTTATTCAGGGACTAGAACTCGAAAAATAATCTTCCTACGGGTA-TGCCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAG-ACTGCCCAA
* * *
4679406 TTTTCTTCAAGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAA
4679458 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAA
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAA
4679510 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTT
1 TTTTCTTCAGGGACTAGAACTCGAACAATAATCTT
4679545 TGTCCAAACG
Statistics
Matches: 681, Mismatches: 28, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
52 680 1.00
53 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (52 bp):
TTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAA
Found at i:4678892 original size:24 final size:24
Alignment explanation
Indices: 4678813--4678893 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
4678803 CGAACGATAA
4678813 TCTTCCTACGAGACTGCCCAATTT
1 TCTTCCTACGAGACTGCCCAATTT
** * ** **
4678837 TCTTCAGGGACTAGAACTCGAACAATAA
1 TCTTC--CTACGAG-ACT-GCCCAATTT
4678865 TCTTCCTACGAGACTGCCCAATTT
1 TCTTCCTACGAGACTGCCCAATTT
4678889 TCTTC
1 TCTTC
4678894 AGGGACTAGA
Statistics
Matches: 39, Mismatches: 14, Indels: 8
0.64 0.23 0.13
Matches are distributed among these distances:
24 15 0.38
25 3 0.08
26 8 0.21
27 3 0.08
28 10 0.26
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.31
Consensus pattern (24 bp):
TCTTCCTACGAGACTGCCCAATTT
Found at i:4678944 original size:24 final size:24
Alignment explanation
Indices: 4678917--4679049 Score: 68
Period size: 24 Copynumber: 5.2 Consensus size: 24
4678907 CGAACAATAA
4678917 TCTTCCTACGAGACTGTCCAATTT
1 TCTTCCTACGAGACTGTCCAATTT
** * ** **
4678941 TCTTCAGGGACTAGAACTCGAACAATAA
1 TCTTC--CTACGAG-ACT-GTCCAATTT
4678969 TCTTCCTACGAGACTGTCCAATTT
1 TCTTCCTACGAGACTGTCCAATTT
** * ** **
4678993 TCTTCAAGGACTAGAACTCGAACAATAA
1 TCTTC--CTACGAG-ACT-GTCCAATTT
4679021 TCTTCCTACGAGACTGTCCAATTT
1 TCTTCCTACGAGACTGTCCAATTT
4679045 TCTTC
1 TCTTC
4679050 AGGGACTAGA
Statistics
Matches: 73, Mismatches: 28, Indels: 16
0.62 0.24 0.14
Matches are distributed among these distances:
24 25 0.34
25 6 0.08
26 16 0.22
27 6 0.08
28 20 0.27
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (24 bp):
TCTTCCTACGAGACTGTCCAATTT
Found at i:4679204 original size:24 final size:24
Alignment explanation
Indices: 4679177--4679309 Score: 59
Period size: 24 Copynumber: 5.2 Consensus size: 24
4679167 CGAACAATAA
*
4679177 TCTTCCTACGAGACTGCCCAATTT
1 TCTTCCTACGAGACTGACCAATTT
** * * **
4679201 TCTTCAGGGACTAGAACTCGAACAATAA
1 TCTTC--CTACGAG-ACT-GACCAATTT
*
4679229 TCTTCCTACGAGACTGTCCAATTT
1 TCTTCCTACGAGACTGACCAATTT
** * * **
4679253 TCTTCAGGGACTAGAACTCGAACAATAA
1 TCTTC--CTACGAG-ACT-GACCAATTT
*
4679281 TCTTCCTACGAGACTGCCCAATTT
1 TCTTCCTACGAGACTGACCAATTT
4679305 TCTTC
1 TCTTC
4679310 AGGGACTAGA
Statistics
Matches: 73, Mismatches: 28, Indels: 16
0.62 0.24 0.14
Matches are distributed among these distances:
24 25 0.34
25 6 0.08
26 16 0.22
27 6 0.08
28 20 0.27
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (24 bp):
TCTTCCTACGAGACTGACCAATTT
Found at i:4680714 original size:2 final size:2
Alignment explanation
Indices: 4680707--4680743 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4680697 AATAATTGAA
4680707 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4680744 CTAATCCATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4682297 original size:3 final size:3
Alignment explanation
Indices: 4682279--4682366 Score: 92
Period size: 3 Copynumber: 29.7 Consensus size: 3
4682269 CAAATAGTTG
* *
4682279 TAA TAAA TAT TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA TCA
1 TAA T-AA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* * *
4682326 T-A TAA T-A TAA TAA TAA TAA TAA TTA TTA TTA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4682367 TTTATATCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
2 6 0.08
3 63 0.84
4 6 0.08
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:4682301 original size:19 final size:19
Alignment explanation
Indices: 4682279--4682344 Score: 87
Period size: 19 Copynumber: 3.3 Consensus size: 19
4682269 CAAATAGTTG
4682279 TAATAAATATTAATAATAA
1 TAATAAATATTAATAATAA
*
4682298 TAATAAATAATAATAATAA
1 TAATAAATATTAATAATAA
*
4682317 TAATAATCATATAATATAATAA
1 TAATAA--ATATTA-ATAATAA
4682339 TAATAA
1 TAATAA
4682345 TAATTATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 24 0.59
21 4 0.10
22 13 0.32
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
TAATAAATATTAATAATAA
Found at i:4685867 original size:25 final size:26
Alignment explanation
Indices: 4685829--4685886 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
4685819 AAGAGTAAGG
* *
4685829 TTATATTTGATTTTAGAAAATATTTT
1 TTATTTTTGATTTTAGAAAATAATTT
* *
4685855 TTGTTTTTG-TTTTATAAAATAATTT
1 TTATTTTTGATTTTAGAAAATAATTT
4685880 TTATTTT
1 TTATTTT
4685887 CAGTTTTTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 20 0.74
26 7 0.26
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (26 bp):
TTATTTTTGATTTTAGAAAATAATTT
Found at i:4685892 original size:26 final size:25
Alignment explanation
Indices: 4685839--4685893 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
4685829 TTATATTTGA
* * *
4685839 TTTTAGAAAATATTTTTTGTTTTTG
1 TTTTAGAAAATAATTTTTATTTTAG
*
4685864 TTTTATAAAATAATTTTTATTTTCAG
1 TTTTAGAAAATAATTTTTATTTT-AG
4685890 TTTT
1 TTTT
4685894 TTGAAAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 20 0.80
26 5 0.20
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (25 bp):
TTTTAGAAAATAATTTTTATTTTAG
Found at i:4687003 original size:25 final size:25
Alignment explanation
Indices: 4686928--4686996 Score: 138
Period size: 25 Copynumber: 2.8 Consensus size: 25
4686918 CATTACCTAT
4686928 TTTTTAAGAAATTGAAAATTTCTTA
1 TTTTTAAGAAATTGAAAATTTCTTA
4686953 TTTTTAAGAAATTGAAAATTTCTTA
1 TTTTTAAGAAATTGAAAATTTCTTA
4686978 TTTTTAAGAAATTGAAAAT
1 TTTTTAAGAAATTGAAAAT
4686997 AATTTATATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (25 bp):
TTTTTAAGAAATTGAAAATTTCTTA
Found at i:4687700 original size:10 final size:10
Alignment explanation
Indices: 4687687--4687727 Score: 73
Period size: 10 Copynumber: 4.1 Consensus size: 10
4687677 GTGTTTGTGT
4687687 TGTTCGTTTA
1 TGTTCGTTTA
4687697 TGTTCGTTTA
1 TGTTCGTTTA
*
4687707 CGTTCGTTTA
1 TGTTCGTTTA
4687717 TGTTCGTTTA
1 TGTTCGTTTA
4687727 T
1 T
4687728 CATTTAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.10, C:0.12, G:0.20, T:0.59
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:4687816 original size:16 final size:16
Alignment explanation
Indices: 4687791--4687821 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4687781 CAATTTTTTT
4687791 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
*
4687807 TGTTCGTTTATGTTC
1 TGTTCATTTATGTTC
4687822 ATTTATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.13, G:0.19, T:0.58
Consensus pattern (16 bp):
TGTTCATTTATGTTCG
Found at i:4693690 original size:2 final size:2
Alignment explanation
Indices: 4693683--4693745 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
4693673 AACAAAATAT
4693683 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4693725 CA CA CA CA -A CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA
4693746 TATTATGATA
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:4695657 original size:12 final size:12
Alignment explanation
Indices: 4695640--4695666 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4695630 GATGGTGAAA
4695640 CTTTTTAATAAT
1 CTTTTTAATAAT
4695652 CTTTTTAATAAT
1 CTTTTTAATAAT
4695664 CTT
1 CTT
4695667 ACAAGTGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (12 bp):
CTTTTTAATAAT
Found at i:4703263 original size:2 final size:2
Alignment explanation
Indices: 4703256--4703286 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4703246 TTATTATTTA
*
4703256 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4703287 AAATAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:4704755 original size:3 final size:3
Alignment explanation
Indices: 4704739--4704795 Score: 54
Period size: 3 Copynumber: 21.0 Consensus size: 3
4704729 TTTGGGCTTG
* *
4704739 TAA TAA -AA -AA TAA TAA T-A TTA TAA T-A TAA TAA TAA TAT TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4704782 TAA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA
4704796 ATAAAACAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
2 12 0.26
3 34 0.74
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4704771 original size:19 final size:19
Alignment explanation
Indices: 4704745--4704794 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
4704735 CTTGTAATAA
*
4704745 AAAATAATAATATTATAAT
1 AAAATAATAATATTAAAAT
*
4704764 ATAATAATAATATTAAAAT
1 AAAATAATAATATTAAAAT
4704783 AAAATAATAATA
1 AAAATAATAATA
4704795 AATAAAACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATAATAATATTAAAAT
Found at i:4704806 original size:19 final size:22
Alignment explanation
Indices: 4704740--4704795 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
4704730 TTGGGCTTGT
4704740 AATAAAA-AATAATAATATT--
1 AATAAAATAATAATAATATTAA
*
4704759 -ATAATATAATAATAATATTAA
1 AATAAAATAATAATAATATTAA
4704780 AATAAAATAATAATAA
1 AATAAAATAATAATAA
4704796 ATAAAACAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 5 0.16
19 12 0.39
22 14 0.45
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AATAAAATAATAATAATATTAA
Found at i:4705407 original size:113 final size:113
Alignment explanation
Indices: 4705048--4705417 Score: 542
Period size: 110 Copynumber: 3.3 Consensus size: 113
4705038 AGAATCATGC
*
4705048 AAAAGATTGAAGAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * * *
4705113 TATGAACTC-TCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGCA
65 TATGAACTCGACT-TGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
4705162 AAAAGTTGAACAAGTTCTTCT-ATTATGAA-TT-TTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
4705224 ATGAACTCGCCCTGGC-CTGCTGATCCATCGAAT-A--AATTCAAGCG
66 ATGAACTCGACTTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
* *
4705268 ACAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCCTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
4705333 ATGAACTCGACTTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACTTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
4705381 AAAAGTTGAACAAGTTCTTCTCATTATGAAC-TCTTCT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT
4705418 GGAAATGCTG
Statistics
Matches: 231, Mismatches: 17, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
106 28 0.12
107 8 0.03
108 3 0.01
109 57 0.25
110 58 0.25
111 4 0.02
112 13 0.06
113 55 0.24
114 5 0.02
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (113 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCGACTTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
Found at i:4705446 original size:72 final size:73
Alignment explanation
Indices: 4705320--4705484 Score: 278
Period size: 72 Copynumber: 2.3 Consensus size: 73
4705310 TCTTCAGATG
* * *
4705320 AGTTCTTCTCATTATGAACTCGACTTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAA
1 AGTTCTTCTCATTATGAACTCGACTTGGAAATGCTGATCCATCGAATGAGGAATTCAAGCAAAAA
4705385 GTTGAACA
66 GTTGAACA
**
4705393 AGTTCTTCTCATTATGAACTCTTC-TGGAAATGCTGATCCATCGAATGAGGAATTCAAGCAAAAA
1 AGTTCTTCTCATTATGAACTCGACTTGGAAATGCTGATCCATCGAATGAGGAATTCAAGCAAAAA
4705457 GTTGAACA
66 GTTGAACA
4705465 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
4705485 TTTTCTTCCT
Statistics
Matches: 87, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
72 65 0.75
73 22 0.25
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (73 bp):
AGTTCTTCTCATTATGAACTCGACTTGGAAATGCTGATCCATCGAATGAGGAATTCAAGCAAAAA
GTTGAACA
Found at i:4705659 original size:22 final size:22
Alignment explanation
Indices: 4705634--4705688 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
4705624 CAATAAGCTT
4705634 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
4705656 TCATCTTTTAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
4705678 TCATCTTTGAA
1 TCATCTTTGAA
4705689 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:4706137 original size:54 final size:54
Alignment explanation
Indices: 4706055--4706210 Score: 231
Period size: 54 Copynumber: 2.9 Consensus size: 54
4706045 AGAATAGCAG
* * *
4706055 GTTCGTAAAACATTTGATAGCGCATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGATAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAC
* * *
4706109 GTTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGGTTTCTGCTCAGAC
1 GTTCGTAAAACATTTGATAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAC
* * *
4706163 GTTCGTAAAGCGTTTGATAACACATTCATCCTTTTCTGTGGCTTCTGC
1 GTTCGTAAAACATTTGATAACACATTCATCCTTTCCTGTGGCTTCTGC
4706211 CAAGATTTCT
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
GTTCGTAAAACATTTGATAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAC
Found at i:4708479 original size:114 final size:114
Alignment explanation
Indices: 4708279--4708495 Score: 353
Period size: 114 Copynumber: 1.9 Consensus size: 114
4708269 GATCATACAG
* * * *
4708279 TTCATCTTTTAATTCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* * *
4708344 ATACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTATGAGCAAA
*
4708393 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
4708458 ACACTTCCAGAAGATGTTATTGGGGCTCCTTATTTCTA
66 ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTA
4708496 TTACGAGAAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 94 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTATGAGCAAA
Found at i:4715955 original size:24 final size:23
Alignment explanation
Indices: 4715928--4715985 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
4715918 ATCGTTTCTG
4715928 TTTTT-TTTTGTTGCTCTCTGTCCT
1 TTTTTCTTTTGTT-CTCTCTGT-CT
* *
4715952 TTTTTCTTCTGTTCTCTGTGTCT
1 TTTTTCTTTTGTTCTCTCTGTCT
*
4715975 TTTTTGTTTTG
1 TTTTTCTTTTG
4715986 CAGGATCCGG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 11 0.38
24 12 0.41
25 6 0.21
ACGTcount: A:0.00, C:0.17, G:0.14, T:0.69
Consensus pattern (23 bp):
TTTTTCTTTTGTTCTCTCTGTCT
Found at i:4716513 original size:3 final size:3
Alignment explanation
Indices: 4716497--4716553 Score: 54
Period size: 3 Copynumber: 21.0 Consensus size: 3
4716487 TTTGGGCCTG
* *
4716497 TAA TAA -AA -AA TAA TAA T-A TTA TAA T-A TAA TAA TAA TAT TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4716540 TAA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA
4716554 ATAAAACAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
2 12 0.26
3 34 0.74
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4716529 original size:19 final size:19
Alignment explanation
Indices: 4716503--4716552 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
4716493 CCTGTAATAA
*
4716503 AAAATAATAATATTATAAT
1 AAAATAATAATATTAAAAT
*
4716522 ATAATAATAATATTAAAAT
1 AAAATAATAATATTAAAAT
4716541 AAAATAATAATA
1 AAAATAATAATA
4716553 AATAAAACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATAATAATATTAAAAT
Found at i:4716564 original size:19 final size:22
Alignment explanation
Indices: 4716498--4716553 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
4716488 TTGGGCCTGT
4716498 AATAAAA-AATAATAATATT--
1 AATAAAATAATAATAATATTAA
*
4716517 -ATAATATAATAATAATATTAA
1 AATAAAATAATAATAATATTAA
4716538 AATAAAATAATAATAA
1 AATAAAATAATAATAA
4716554 ATAAAACAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 5 0.16
19 12 0.39
22 14 0.45
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AATAAAATAATAATAATATTAA
Found at i:4721476 original size:22 final size:22
Alignment explanation
Indices: 4721445--4721487 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4721435 CAGACTTTAG
*
4721445 CAGAGTGGTGATCAGGTCTCGT
1 CAGAGCGGTGATCAGGTCTCGT
4721467 CAGAGCGGTGATCAGGTCTCG
1 CAGAGCGGTGATCAGGTCTCG
4721488 AGAGAGGCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.21, G:0.37, T:0.23
Consensus pattern (22 bp):
CAGAGCGGTGATCAGGTCTCGT
Found at i:4721493 original size:22 final size:21
Alignment explanation
Indices: 4721445--4721501 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
4721435 CAGACTTTAG
*
4721445 CAGAGTGGTGATCAGGTCTCGT
1 CAGAG-GGTGATCAGGTCTCGA
4721467 CAGAGCGGTGATCAGGTCTCGA
1 CAGAG-GGTGATCAGGTCTCGA
* *
4721489 GAGAGGCTGATCA
1 CAGAGGGTGATCA
4721502 CCAAGGCAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 7 0.23
22 24 0.77
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.21
Consensus pattern (21 bp):
CAGAGGGTGATCAGGTCTCGA
Found at i:4729929 original size:21 final size:21
Alignment explanation
Indices: 4729905--4729951 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
4729895 CCACCTTCGA
* *
4729905 GTATTAATACCCAAAGAAGAT
1 GTATCAATACCCAAAGAACAT
*
4729926 GTATCAATACCCAAGGAACAT
1 GTATCAATACCCAAAGAACAT
4729947 GTATC
1 GTATC
4729952 GATATTACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (21 bp):
GTATCAATACCCAAAGAACAT
Found at i:4731245 original size:27 final size:27
Alignment explanation
Indices: 4731185--4731248 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
4731175 TAACAAAAAT
*
4731185 AAGAAAACTAAAGAGTAAATATACAAAC
1 AAGAAAA-TAAAGAGTAAAAATACAAAC
* *
4731213 CA-AAAATAAAGATGTAAAAATATAAA-
1 AAGAAAATAAAGA-GTAAAAATACAAAC
4731239 AAGAAAATAA
1 AAGAAAATAA
4731249 TAAATAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
26 7 0.23
27 22 0.73
28 1 0.03
ACGTcount: A:0.69, C:0.06, G:0.09, T:0.16
Consensus pattern (27 bp):
AAGAAAATAAAGAGTAAAAATACAAAC
Found at i:4731355 original size:23 final size:23
Alignment explanation
Indices: 4731311--4731355 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4731301 AAAATGTGTA
* *
4731311 AAAATATTTATATGATGTAATAT
1 AAAATATATATATAATGTAATAT
4731334 AAAATATGATATATAATG-AATA
1 AAAATAT-ATATATAATGTAATA
4731356 AATAGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (23 bp):
AAAATATATATATAATGTAATAT
Found at i:4732012 original size:17 final size:17
Alignment explanation
Indices: 4731987--4732020 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4731977 AGATTAATTG
* *
4731987 AATACAAAAACATAAAA
1 AATAAAAAAAAATAAAA
4732004 AATAAAAAAAAATAAAA
1 AATAAAAAAAAATAAAA
4732021 GGAAACCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (17 bp):
AATAAAAAAAAATAAAA
Found at i:4732889 original size:22 final size:23
Alignment explanation
Indices: 4732864--4732924 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
4732854 TCAACTATTA
*
4732864 TAACTCCTGATATTATATC-ATG
1 TAACTCCTGATATTAAATCAATG
* *
4732886 TAACGCCTGAAATTAAATCAATG
1 TAACTCCTGATATTAAATCAATG
4732909 TAACTCCTGATATTAA
1 TAACTCCTGATATTAA
4732925 CAGCTTGTCC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
22 16 0.48
23 17 0.52
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (23 bp):
TAACTCCTGATATTAAATCAATG
Found at i:4737021 original size:20 final size:20
Alignment explanation
Indices: 4736996--4737033 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4736986 CAATTTATTC
4736996 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
4737016 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
4737034 CCCTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:4737024 original size:65 final size:64
Alignment explanation
Indices: 4736889--4737033 Score: 170
Period size: 65 Copynumber: 2.2 Consensus size: 64
4736879 AATAAGCCTA
*
4736889 AGTGCATCGATGCGTAAAATGCATTCGATGTTTTCATTAAAACTTGAGTGCATCGATGCATGGAG
1 AGTGCATCGATGCATAAAATGCATTCGATG-TTTCATTAAAACTTGAGTGCATCGATGCATGGAG
* * **
4736954 AGTGCATCGATGCATAAACTGCATTCGATG-TTCAATTTATTCATTG-GTGCATCGATGCATGGA
1 AGTGCATCGATGCATAAAATGCATTCGATGTTTC-ATTAAAAC-TTGAGTGCATCGATGCATGGA
4737017 TTG
64 --G
*
4737020 -GTGCATCGGTGCAT
1 AGTGCATCGATGCAT
4737034 CCCTTTGAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
63 3 0.04
64 22 0.31
65 44 0.63
66 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (64 bp):
AGTGCATCGATGCATAAAATGCATTCGATGTTTCATTAAAACTTGAGTGCATCGATGCATGGAG
Found at i:4748974 original size:49 final size:49
Alignment explanation
Indices: 4748915--4749232 Score: 164
Period size: 50 Copynumber: 6.5 Consensus size: 49
4748905 TATCTTCACT
* * *
4748915 TGGTTGATTTGCTTTCTCGTCTCTTCATGAAGATCAAATTTGAAAAACA
1 TGGTTGATTTGATTCCTCGTCTCTTCATGAAGATCAAATTTAAAAAACA
* * *
4748964 TGGTTTATTTGATTCCTCGTCTTTTCATGAATATCAAATTT-AAAAA-A
1 TGGTTGATTTGATTCCTCGTCTCTTCATGAAGATCAAATTTAAAAAACA
** * * ** * * * *
4749011 TTATTGATGTGCTTCCTCAACTCTTCAAGAAGGTTAGATCTT-AAAAA-A
1 TGGTTGATTTGATTCCTCGTCTCTTCATGAAGATCAAAT-TTAAAAAACA
* * * * * ** * *
4749059 T-GATGATTTGTTTTCTCATATCTTTGTGAAGGTCAAATCTTAAAAAACT
1 TGGTTGATTTGATTCCTCGTCTCTTCATGAAGATCAAAT-TTAAAAAACA
* * * * * * * *
4749108 TGGTTGATTTGCTTTCTCATTTCTTCGTGAAGATTAAATCTAAAAAAACT
1 TGGTTGATTTGATTCCTCGTCTCTTCATGAAGATCAAAT-TTAAAAAACA
* * * * * *
4749158 TGGATGATCTGCTTCCTCATCTCTTTC-TGAAGGTCAAATCTT-AAAAACT
1 TGGTTGATTTGATTCCTCGTCTC-TTCATGAAGATCAAAT-TTAAAAAACA
* **
4749207 TGGTTGATTTGTTTCCTTATCTCTTC
1 TGGTTGATTTGATTCCTCGTCTCTTC
4749233 GTAAAGGTCA
Statistics
Matches: 215, Mismatches: 49, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
47 55 0.26
48 22 0.10
49 63 0.29
50 72 0.33
51 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (49 bp):
TGGTTGATTTGATTCCTCGTCTCTTCATGAAGATCAAATTTAAAAAACA
Found at i:4749090 original size:47 final size:49
Alignment explanation
Indices: 4749039--4749451 Score: 219
Period size: 50 Copynumber: 8.4 Consensus size: 49
4749029 AACTCTTCAA
* * *
4749039 GAAGGTTAGATCTTAAAAAA-T-GATGATTTGTTTTCTCATATCTTTGT
1 GAAGGTCAAATCTTAAAAAACTGGATGATTTGCTTTCTCATATCTTTGT
* * *
4749086 GAAGGTCAAATCTTAAAAAACTTGGTTGATTTGCTTTCTCATTTCTTCGT
1 GAAGGTCAAATCTTAAAAAAC-TGGATGATTTGCTTTCTCATATCTTTGT
* * * * * * *
4749136 GAAGATTAAATCTAAAAAAACTTGGATGATCTGCTTCCTCATCTCTTTCT
1 GAAGGTCAAATCTTAAAAAAC-TGGATGATTTGCTTTCTCATATCTTTGT
* *
4749186 GAAGGTCAAATCTT-AAAAACTTGGTTGATTTG-TTTC-CTTATCTCTTCGT
1 GAAGGTCAAATCTTAAAAAAC-TGGATGATTTGCTTTCTCATATCT-TT-GT
* ** **
4749235 AAAGGTCAAATCAAAAAAATAACTTTGGATGACATG-TTTC-C---TCTTTGT
1 GAAGGTCAAATC-TTAAAA-AAC--TGGATGATTTGCTTTCTCATATCTTTGT
* * * * *
4749283 GATGGTTAAATC-TAAAAAATATGGTTGATTTGC-TTCGTCAT-CCTTTTGT
1 GAAGGTCAAATCTTAAAAAA-CTGGATGATTTGCTTTC-TCATATC-TTTGT
* * * * * * * *
4749332 TAAGGTCAAATCTT-AAAAGCTTGATTGATCTGCTTCCTCGTCTCTTCGT
1 GAAGGTCAAATCTTAAAAAACTGGA-TGATTTGCTTTCTCATATCTTTGT
* * * * * *
4749381 -AAGGTAAAATCTTAAAAAACTTGATCGATCTACTTCCTCATCTCTTTGT
1 GAAGGTCAAATCTTAAAAAACTGGAT-GATTTGCTTTCTCATATCTTTGT
*
4749430 GAAAGTCAAA-CATTAAAAAACT
1 GAAGGTCAAATC-TTAAAAAACT
4749452 TAGTTGATCC
Statistics
Matches: 284, Mismatches: 58, Indels: 45
0.73 0.15 0.12
Matches are distributed among these distances:
44 11 0.04
45 2 0.01
46 5 0.02
47 23 0.08
48 32 0.11
49 93 0.33
50 98 0.35
51 3 0.01
52 3 0.01
53 14 0.05
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (49 bp):
GAAGGTCAAATCTTAAAAAACTGGATGATTTGCTTTCTCATATCTTTGT
Found at i:4749138 original size:50 final size:50
Alignment explanation
Indices: 4748912--4749459 Score: 348
Period size: 49 Copynumber: 11.2 Consensus size: 50
4748902 ATTTATCTTC
* * * *
4748912 ACTTGGTTGATTTGCTTTCTCGTCTCTTCATGAAGATCAAAT-TTGAAAA
1 ACTTGGTTGATTTGCTTTCTCATCTCTTCGTGAAGGTCAAATCTTAAAAA
* * * * * * * **
4748961 ACATGGTTTATTTGATTCCTCGTCTTTTCATGAATATCAAAT-TTAAAAA
1 ACTTGGTTGATTTGCTTTCTCATCTCTTCGTGAAGGTCAAATCTTAAAAA
* * * * ** * *
4749010 A-TT-ATTGATGTGCTTCCTCAACTCTTCAAGAAGGTTAGATCTTAAAAA
1 ACTTGGTTGATTTGCTTTCTCATCTCTTCGTGAAGGTCAAATCTTAAAAA
* * * *
4749058 A--T-GATGATTTGTTTTCTCATATCTTTGTGAAGGTCAAATCTTAAAAA
1 ACTTGGTTGATTTGCTTTCTCATCTCTTCGTGAAGGTCAAATCTTAAAAA
* * * *
4749105 ACTTGGTTGATTTGCTTTCTCATTTCTTCGTGAAGATTAAATCTAAAAAA
1 ACTTGGTTGATTTGCTTTCTCATCTCTTCGTGAAGGTCAAATCTTAAAAA
* * *
4749155 ACTTGGATGATCTGCTTCCTCATCTCTTTC-TGAAGGTCAAATCTT-AAAA
1 ACTTGGTTGATTTGCTTTCTCATCTC-TTCGTGAAGGTCAAATCTTAAAAA
* * **
4749204 ACTTGGTTGATTTG-TTTCCTTATCTCTTCGTAAAGGTCAAATCAAAAAAATA
1 ACTTGGTTGATTTGCTTT-CTCATCTCTTCGTGAAGGTCAAATC-TTAAAA-A
* ** * *
4749256 ACTTTGGATGACATG-TTTC-C-TCT-TT-GTGATGGTTAAATC-TAAAAA
1 AC-TTGGTTGATTTGCTTTCTCATCTCTTCGTGAAGGTCAAATCTTAAAAA
* *
4749301 A-TATGGTTGATTTGC-TTCGTCATC-CTTTTGTTAAGGTCAAATCTT-AAAA
1 ACT-TGGTTGATTTGCTTTC-TCATCTC-TTCGTGAAGGTCAAATCTTAAAAA
* * * * * *
4749350 GCTTGATTGATCTGCTTCCTCGTCTCTTCGT-AAGGTAAAATCTTAAAAA
1 ACTTGGTTGATTTGCTTTCTCATCTCTTCGTGAAGGTCAAATCTTAAAAA
* * * * * * *
4749399 ACTTGATCGATCTACTTCCTCATCTCTTTGTGAAAGTCAAA-CATTAAAAA
1 ACTTGGTTGATTTGCTTTCTCATCTCTTCGTGAAGGTCAAATC-TTAAAAA
*
4749449 ACTTAGTTGAT
1 ACTTGGTTGAT
4749460 CCACTTATTC
Statistics
Matches: 389, Mismatches: 84, Indels: 51
0.74 0.16 0.10
Matches are distributed among these distances:
43 1 0.00
44 11 0.03
45 2 0.01
46 5 0.01
47 62 0.16
48 39 0.10
49 145 0.37
50 102 0.26
51 6 0.02
52 4 0.01
53 12 0.03
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (50 bp):
ACTTGGTTGATTTGCTTTCTCATCTCTTCGTGAAGGTCAAATCTTAAAAA
Found at i:4753761 original size:11 final size:11
Alignment explanation
Indices: 4753742--4753775 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
4753732 ATACCAAGTC
*
4753742 TTCGATATGGA
1 TTCGGTATGGA
4753753 TTCGGTATGGA
1 TTCGGTATGGA
*
4753764 TTTGGTATGGA
1 TTCGGTATGGA
4753775 T
1 T
4753776 ACTTAATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.21, C:0.06, G:0.32, T:0.41
Consensus pattern (11 bp):
TTCGGTATGGA
Found at i:4753792 original size:20 final size:21
Alignment explanation
Indices: 4753767--4753862 Score: 94
Period size: 20 Copynumber: 4.8 Consensus size: 21
4753757 GTATGGATTT
*
4753767 GGTATGGATACTTAATC-TTC
1 GGTATGGATACTCAATCATTC
4753787 GGTATGGATA-TCAACTCATTC
1 GGTATGGATACTCAA-TCATTC
* *
4753808 GATATGGATAC-CAGTCATTC
1 GGTATGGATACTCAATCATTC
* *
4753828 GGTATGGATAAT-AATCCTTC
1 GGTATGGATACTCAATCATTC
*
4753848 GATATGGATAC-CAAT
1 GGTATGGATACTCAAT
4753863 TTTTCTAGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
19 3 0.05
20 45 0.73
21 14 0.23
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (21 bp):
GGTATGGATACTCAATCATTC
Found at i:4753859 original size:40 final size:41
Alignment explanation
Indices: 4753784--4753860 Score: 122
Period size: 40 Copynumber: 1.9 Consensus size: 41
4753774 ATACTTAATC
4753784 TTCGGTATGGATATCAACTCATTCGATATGGATACCAGTCA
1 TTCGGTATGGATATCAACTCATTCGATATGGATACCAGTCA
*
4753825 TTCGGTATGGATAAT-AA-TCCTTCGATATGGATACCA
1 TTCGGTATGGAT-ATCAACTCATTCGATATGGATACCA
4753861 ATTTTTCTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
40 18 0.53
41 14 0.41
42 2 0.06
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (41 bp):
TTCGGTATGGATATCAACTCATTCGATATGGATACCAGTCA
Found at i:4753910 original size:61 final size:60
Alignment explanation
Indices: 4753845--4753964 Score: 147
Period size: 61 Copynumber: 2.0 Consensus size: 60
4753835 ATAATAATCC
* *
4753845 TTCGATATGGATACC-A-ATTTTTCTAGTATGGATAC-CATCCCATCAGTATCGATACCAAGCA
1 TTCGATATCGATACCGAGA-TTTTC-A-TATGGATACACAACCC-TCAGTATCGATACCAAGCA
*
4753906 TTCGATATCGATACCGAGATTTTCATATTGATACTACAACCCTCAGTATCGATACCAAG
1 TTCGATATCGATACCGAGATTTTCATATGGATAC-ACAACCCTCAGTATCGATACCAAG
4753965 GGACAAATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
60 8 0.15
61 32 0.62
62 11 0.21
63 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (60 bp):
TTCGATATCGATACCGAGATTTTCATATGGATACACAACCCTCAGTATCGATACCAAGCA
Found at i:4756494 original size:17 final size:17
Alignment explanation
Indices: 4756456--4756494 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
4756446 ATTGTCATAG
*
4756456 AAAAACTTTATCAGACA
1 AAAAACTTTATCAGAAA
4756473 AAAAACTTTATCA-AAA
1 AAAAACTTTATCAGAAA
4756489 AGAAAA
1 A-AAAA
4756495 TTAAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.62, C:0.13, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAAACTTTATCAGAAA
Found at i:4759446 original size:6 final size:6
Alignment explanation
Indices: 4759435--4759462 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
4759425 AATAATAGCA
4759435 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
4759463 GGAAAATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:4760207 original size:39 final size:39
Alignment explanation
Indices: 4760120--4760257 Score: 181
Period size: 39 Copynumber: 3.6 Consensus size: 39
4760110 ACATAGCATA
* * * *
4760120 AGGA-CCTACGGTAAGGACTTACCATGTG-ACAAAGCAG
1 AGGAGCCTGCGGTAAGGACTTACCCTGAGCACAAAGCCG
*
4760157 AGGAGCCTGCGGTAAGGACTTACCCTGAGCACAAAGCCT
1 AGGAGCCTGCGGTAAGGACTTACCCTGAGCACAAAGCCG
* * * *
4760196 AGAAGCATGCGGTAAGGACTTGCCCTGAGCACAAAGTCG
1 AGGAGCCTGCGGTAAGGACTTACCCTGAGCACAAAGCCG
4760235 AGGAGCCTGCGGTAAGGACTTAC
1 AGGAGCCTGCGGTAAGGACTTAC
4760258 AAGTCATAGA
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
37 4 0.05
38 21 0.24
39 61 0.71
ACGTcount: A:0.30, C:0.24, G:0.30, T:0.16
Consensus pattern (39 bp):
AGGAGCCTGCGGTAAGGACTTACCCTGAGCACAAAGCCG
Found at i:4773955 original size:107 final size:107
Alignment explanation
Indices: 4773657--4773972 Score: 429
Period size: 105 Copynumber: 2.9 Consensus size: 107
4773647 AGCTATGGTT
* * * * *
4773657 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTTTGTCGGATGAGTTCTTCTTATTATGAACT
1 GAACAAGTTCTTCTCATTACGAAC--CTTCTCCTTTAG-AGGACGAGTTCTTCTCATTATGAACT
* * *
4773722 CTTCTGGAAATGTTGATTCACCTCTTTCTGGGGTGAATTGGAAAG
63 CTTCTGGAAATGTTGATTCACCTCCTTCTGCGGTGAATTGAAAAG
* *
4773767 GAACAAGCTCTTCTCATTACGAACCTTCTCTTTTA-AGG-CGAGTTCTTCTCATTATGAACTCTT
1 GAACAAGTTCTTCTCATTACGAACCTTCTCCTTTAGAGGACGAGTTCTTCTCATTATGAACTCTT
* * * *
4773830 CTGGAAATATTGGTTCACCTCCTTCTGCGGTGGATTTAAAAG
66 CTGGAAATGTTGATTCACCTCCTTCTGCGGTGAATTGAAAAG
*
4773872 GAACATGTTCTTCTCATTACGAACCTTCTCCTTTAGAGGACGAGTTCTTCTCATTATGAACTCTT
1 GAACAAGTTCTTCTCATTACGAACCTTCTCCTTTAGAGGACGAGTTCTTCTCATTATGAACTCTT
* * *
4773937 TTGGAAATGTTGATTCACCTCCTTTTGGGGTGAATT
66 CTGGAAATGTTGATTCACCTCCTTCTGCGGTGAATT
4773973 ATAGTTGTTG
Statistics
Matches: 181, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
105 90 0.50
106 5 0.03
107 55 0.30
108 9 0.05
110 22 0.12
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (107 bp):
GAACAAGTTCTTCTCATTACGAACCTTCTCCTTTAGAGGACGAGTTCTTCTCATTATGAACTCTT
CTGGAAATGTTGATTCACCTCCTTCTGCGGTGAATTGAAAAG
Found at i:4774883 original size:8 final size:8
Alignment explanation
Indices: 4774872--4774986 Score: 144
Period size: 8 Copynumber: 13.9 Consensus size: 8
4774862 TCTTTTCTTT
4774872 TTTTTTCA
1 TTTTTTCA
4774880 TTTTTTCA
1 TTTTTTCA
4774888 TTTTTTTTCA
1 --TTTTTTCA
4774898 TTTTTTCTTCA
1 --TTTT-TTCA
4774909 TTTTTTCA
1 TTTTTTCA
4774917 TTTTTTCA
1 TTTTTTCA
4774925 TTTTTTCA
1 TTTTTTCA
4774933 TTTTTTCA
1 TTTTTTCA
4774941 TTTTTTCA
1 TTTTTTCA
4774949 TTTTTTTCA
1 -TTTTTTCA
4774958 --TTTTCA
1 TTTTTTCA
4774964 TTTTTTCA
1 TTTTTTCA
**
4774972 TTCATTCA
1 TTTTTTCA
4774980 TTTTTTC
1 TTTTTTC
4774987 TTCAAGCATA
Statistics
Matches: 97, Mismatches: 4, Indels: 12
0.86 0.04 0.11
Matches are distributed among these distances:
6 6 0.06
8 61 0.63
9 12 0.12
10 14 0.14
11 4 0.04
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTTTCA
Found at i:4774891 original size:24 final size:23
Alignment explanation
Indices: 4774859--4774985 Score: 109
Period size: 24 Copynumber: 5.5 Consensus size: 23
4774849 CGAACCCTCC
4774859 TTTTC-TTTTCTTTTTTTTTCATT
1 TTTTCATTTT-TTTTTTTTTCATT
**
4774882 TTTTCATTTTTTTTCATTT--TT
1 TTTTCATTTTTTTTTTTTTCATT
* *
4774903 TCTTCATTTTTTCATTTTTTCATT
1 TTTTCATTTTTT-TTTTTTTCATT
*
4774927 TTTTCATTTTTTCATTTTTTCATTT
1 TTTTCATTTTTT-TTTTTTTCA-TT
**
4774952 TTTTCA-TTTTCATTTTTTCATT
1 TTTTCATTTTTTTTTTTTTCATT
**
4774974 CATTCATTTTTT
1 TTTTCATTTTTT
4774986 CTTCAAGCAT
Statistics
Matches: 87, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
21 13 0.15
22 10 0.11
23 25 0.29
24 31 0.36
25 8 0.09
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTCATTTTTTTTTTTTTCATT
Found at i:4774915 original size:11 final size:10
Alignment explanation
Indices: 4774859--4774961 Score: 88
Period size: 8 Copynumber: 11.4 Consensus size: 10
4774849 CGAACCCTCC
*
4774859 TTTTCTTTTCT
1 TTTT-TTTTCA
4774870 TTTTTTTTCA
1 TTTTTTTTCA
4774880 --TTTTTTCA
1 TTTTTTTTCA
4774888 TTTTTTTTCA
1 TTTTTTTTCA
4774898 TTTTTTCTTCA
1 TTTTTT-TTCA
4774909 --TTTTTTCA
1 TTTTTTTTCA
4774917 --TTTTTTCA
1 TTTTTTTTCA
4774925 --TTTTTTCA
1 TTTTTTTTCA
4774933 --TTTTTTCA
1 TTTTTTTTCA
4774941 --TTTTTTCA
1 TTTTTTTTCA
4774949 -TTTTTTTCA
1 TTTTTTTTCA
4774958 TTTT
1 TTTT
4774962 CATTTTTTCA
Statistics
Matches: 86, Mismatches: 1, Indels: 11
0.88 0.01 0.11
Matches are distributed among these distances:
8 44 0.51
9 12 0.14
10 22 0.26
11 8 0.09
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:4780625 original size:22 final size:23
Alignment explanation
Indices: 4780579--4780625 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
4780569 CCCCTATGTT
4780579 GGAATCGGTTCCCCTTCAAAGGG
1 GGAATCGGTTCCCCTTCAAAGGG
4780602 GGAATCGGTTCCCCTTC-AAGGG
1 GGAATCGGTTCCCCTTCAAAGGG
4780624 GG
1 GG
4780626 TACCGATTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.19, C:0.26, G:0.34, T:0.21
Consensus pattern (23 bp):
GGAATCGGTTCCCCTTCAAAGGG
Found at i:4780641 original size:23 final size:23
Alignment explanation
Indices: 4780587--4780641 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
4780577 TTGGAATCGG
* *
4780587 TTCCCCTTCAAAGGGGGAATCGG
1 TTCCCCTTCAAAGGGGGAACCGA
*
4780610 TTCCCCTTC-AAGGGGGTACCGA
1 TTCCCCTTCAAAGGGGGAACCGA
4780632 TTCCCTCTTC
1 TTCCC-CTTC
4780642 CCTATAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 15 0.54
23 13 0.46
ACGTcount: A:0.16, C:0.33, G:0.24, T:0.27
Consensus pattern (23 bp):
TTCCCCTTCAAAGGGGGAACCGA
Found at i:4788149 original size:7 final size:7
Alignment explanation
Indices: 4788137--4788170 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
4788127 AATGAATGTA
4788137 AAGAATG
1 AAGAATG
*
4788144 AAGAATA
1 AAGAATG
4788151 AAGAATG
1 AAGAATG
4788158 AAGAATG
1 AAGAATG
4788165 AA-AATG
1 AAGAATG
4788171 TAAATAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 4 0.16
7 21 0.84
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.15
Consensus pattern (7 bp):
AAGAATG
Found at i:4788154 original size:14 final size:14
Alignment explanation
Indices: 4788135--4788163 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4788125 GAAATGAATG
4788135 TAAAGAATGAAGAA
1 TAAAGAATGAAGAA
4788149 TAAAGAATGAAGAA
1 TAAAGAATGAAGAA
4788163 T
1 T
4788164 GAAAATGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.17
Consensus pattern (14 bp):
TAAAGAATGAAGAA
Found at i:4794862 original size:21 final size:21
Alignment explanation
Indices: 4794836--4794875 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4794826 CAGAACCCTA
*
4794836 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
4794857 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
4794876 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:4794904 original size:20 final size:21
Alignment explanation
Indices: 4794858--4794918 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
4794848 TTCCCCTGTG
4794858 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
4794881 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
4794901 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
4794919 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:4800469 original size:23 final size:22
Alignment explanation
Indices: 4800442--4800485 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
4800432 TTTGAAATGG
4800442 TTTGAAATACTTTGTAAAATTAT
1 TTTGAAATACTTT-TAAAATTAT
* *
4800465 TTTGAAATTCTTTTAAGATTA
1 TTTGAAATACTTTTAAAATTA
4800486 AAACTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (22 bp):
TTTGAAATACTTTTAAAATTAT
Found at i:4806195 original size:2 final size:2
Alignment explanation
Indices: 4806188--4806218 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4806178 AATTGATTAA
4806188 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4806219 ACTTCAGCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4808402 original size:23 final size:22
Alignment explanation
Indices: 4808372--4808453 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 22
4808362 GCATGGCCTT
4808372 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
4808394 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
4808416 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
4808439 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
4808454 TGTTAAGTGC
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
21 15 0.31
22 2 0.04
23 19 0.40
24 12 0.25
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:4808468 original size:44 final size:44
Alignment explanation
Indices: 4808372--4808472 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
4808362 GCATGGCCTT
* *
4808372 GTGCATCGATGCACATTCAAGGCGTGCATCGGTGCACCTTCATG
1 GTGCATCGATGCACATTCAAGGCGTGCATCGATGCACCTTCATA
* *
4808416 GTGTATCGATGCACATTCAAAGG-GATGCATCGATGCA-CTGTTA-A
1 GTGCATCGATGCACATTC-AAGGCG-TGCATCGATGCACCT-TCATA
4808460 GTGCATCGATGCA
1 GTGCATCGATGCA
4808473 TGAAGCACAA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
44 32 0.65
45 17 0.35
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (44 bp):
GTGCATCGATGCACATTCAAGGCGTGCATCGATGCACCTTCATA
Found at i:4814403 original size:65 final size:64
Alignment explanation
Indices: 4814267--4814472 Score: 181
Period size: 65 Copynumber: 3.2 Consensus size: 64
4814257 CACTAAGAGG
*
4814267 GCATCGATGCATGAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTGGT
1 GCATCGATGCATGAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATAGCTGGT
* * *
4814331 GCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGTATCGATGCATAG-TA
1 GCATCGATGCATGAAATGCATTCGATG-TTTCA-AAATAGC-CAGAGTGCATCGATGCATAGCT-
*
4814393 TGT
62 GGT
* * * * * * *
4814396 GCGTCGATGTATGAAATACATTCGAT-TTT-AAATTTATTCCATG-GTGCATCGATGCATGGATT
1 GCATCGATGCATGAAATGCATTCGATGTTTCAAA-ATA-GCCA-GAGTGCATCGATGCATAG-CT
4814458 GGT
62 GGT
*
4814461 GCATCGGTGCAT
1 GCATCGATGCAT
4814473 CACTTTGAAA
Statistics
Matches: 114, Mismatches: 17, Indels: 21
0.75 0.11 0.14
Matches are distributed among these distances:
61 2 0.02
62 1 0.01
63 4 0.04
64 43 0.38
65 60 0.53
66 4 0.04
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (64 bp):
GCATCGATGCATGAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATAGCTGGT
Found at i:4815956 original size:46 final size:43
Alignment explanation
Indices: 4815906--4816003 Score: 127
Period size: 37 Copynumber: 2.3 Consensus size: 43
4815896 TGCATGGCTG
4815906 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACTCTGA
1 GTGCATCGATGCAT---ATGCATTCGATGTTTTCATAAAACTCTGA
4815952 GTGCATC---G---ATGCATTCGATGTTTTCATAAAACTCTGA
1 GTGCATCGATGCATATGCATTCGATGTTTTCATAAAACTCTGA
4815989 GTGCATCGATGCATA
1 GTGCATCGATGCATA
4816004 ATATGTGCAT
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
37 36 0.78
40 1 0.02
43 2 0.04
46 7 0.15
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (43 bp):
GTGCATCGATGCATATGCATTCGATGTTTTCATAAAACTCTGA
Found at i:4815964 original size:37 final size:37
Alignment explanation
Indices: 4815923--4816002 Score: 160
Period size: 37 Copynumber: 2.2 Consensus size: 37
4815913 GATGCATCAA
4815923 ATGCATTCGATGTTTTCATAAAACTCTGAGTGCATCG
1 ATGCATTCGATGTTTTCATAAAACTCTGAGTGCATCG
4815960 ATGCATTCGATGTTTTCATAAAACTCTGAGTGCATCG
1 ATGCATTCGATGTTTTCATAAAACTCTGAGTGCATCG
4815997 ATGCAT
1 ATGCAT
4816003 AATATGTGCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (37 bp):
ATGCATTCGATGTTTTCATAAAACTCTGAGTGCATCG
Found at i:4821584 original size:113 final size:109
Alignment explanation
Indices: 4821386--4821606 Score: 388
Period size: 113 Copynumber: 2.0 Consensus size: 109
4821376 AGTATGAGCC
*
4821386 AGATAGGGTTTCAACCTTTCTACATGAGCGCCGCAAGCCTCCCAAGAGTCCCACGACCAAACCCC
1 AGATAGGGTTTCAACCCTTCTACATGAGCGCCGCAAGCCTCCCAAGAGTCCCACGACCAAACCCC
4821451 TCGGTCAGCTTCCCGAACTTCCCGGCGCAAGGAACTCGACCATCACCT
66 TCGGTCAGCTTCCCGAACTT-CC--C-CAAGGAACTCGACCATCACCT
*
4821499 AGATAGGGTTTCAACCCTTCTACATGAGCGCCGCAAGCCTCTCAAGAGTCCCACGACCAAACCCC
1 AGATAGGGTTTCAACCCTTCTACATGAGCGCCGCAAGCCTCCCAAGAGTCCCACGACCAAACCCC
4821564 TCGGTCAGCTTCCCGAACTTCCCCAAGGAACTCGACCATCACC
66 TCGGTCAGCTTCCCGAACTTCCCCAAGGAACTCGACCATCACC
4821607 AACACGCCAC
Statistics
Matches: 106, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
109 20 0.19
110 1 0.01
112 2 0.02
113 83 0.78
ACGTcount: A:0.25, C:0.38, G:0.19, T:0.18
Consensus pattern (109 bp):
AGATAGGGTTTCAACCCTTCTACATGAGCGCCGCAAGCCTCCCAAGAGTCCCACGACCAAACCCC
TCGGTCAGCTTCCCGAACTTCCCCAAGGAACTCGACCATCACCT
Found at i:4827081 original size:95 final size:94
Alignment explanation
Indices: 4826911--4827098 Score: 270
Period size: 95 Copynumber: 2.0 Consensus size: 94
4826901 ACATTATAAT
* * *
4826911 ATTATATATACAATAATGCGTGAGTTATCCCTCTAGAGCAGTTGGTTAAACGCCCCAGCTTTATG
1 ATTATATATACAATAAAGCGTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCAGCTTTATG
* * *
4826976 GATAATATTCAGCTAGCCTGATAAATGTG
66 GATAAGATTCAGCTAACATGATAAATGTG
* * *
4827005 ATTATACTATACAATAAAGCTTGAGCTGTCCCTCTA-AGGCAATTGGTTAAACGCCCCGGCTTTA
1 ATTATA-TATACAATAAAGCGTGAGCTATCCCTCTAGA-GCAATTGGTTAAACGCCCCAGCTTTA
4827069 TGGATAAGATTCAGCTAACATGATAAATGT
64 TGGATAAGATTCAGCTAACATGATAAATGT
4827099 ATTTACATAT
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
94 7 0.08
95 76 0.92
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (94 bp):
ATTATATATACAATAAAGCGTGAGCTATCCCTCTAGAGCAATTGGTTAAACGCCCCAGCTTTATG
GATAAGATTCAGCTAACATGATAAATGTG
Found at i:4828570 original size:101 final size:101
Alignment explanation
Indices: 4828440--4828964 Score: 811
Period size: 101 Copynumber: 5.2 Consensus size: 101
4828430 CTCAAGACTA
4828440 ATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATT
1 ATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATT
*
4828505 TGTTTTCTTTAAAACAAAGTTTGTCTCTCTAGAGAC
66 TGTTTTCTTTGAAACAAAGTTTGTCTCTCTAGAGAC
4828541 ATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATT
1 ATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATT
4828606 TGTTTTCTTTGAAACAAAGTTTGTCTCTCTAGAGAC
66 TGTTTTCTTTGAAACAAAGTTTGTCTCTCTAGAGAC
4828642 ATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATT
1 ATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATT
*
4828707 AGTTTTCTTTGAAACAAAGTTTGTCTCTCTAGAGAC
66 TGTTTTCTTTGAAACAAAGTTTGTCTCTCTAGAGAC
* * *
4828743 ATTTTCTCTTAAAA-AATTTTTTATCTCTCTTGAGACAGTTTCCCTTGAAACAAAAAAACTTTGA
1 ATTTTCTCTTAAAACAA-ATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAAC--AAAAACTTTGA
*
4828807 ATTTGTTTTCTTTGAAACAAAGTTTGTCTCTCTTGAGAC
63 ATTTGTTTTCTTTGAAACAAAGTTTGTCTCTCTAGAGAC
* * * * * *
4828846 ATTTTCTCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTCCCCTTGAAACAAAATCTTTTAATC
1 ATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATT
* * * * * *
4828911 AGTTTTCCTTAAAACAAA-TTTCGTCTCCCTTGAGAT
66 TGTTTTCTTTGAAACAAAGTTT-GTCTCTCTAGAGAC
* * *
4828947 AATTTCCCTTGAAACAAA
1 ATTTTCTCTTAAAACAAA
4828965 ATCTTTGAAT
Statistics
Matches: 397, Mismatches: 22, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
100 5 0.01
101 298 0.75
103 92 0.23
104 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (101 bp):
ATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATT
TGTTTTCTTTGAAACAAAGTTTGTCTCTCTAGAGAC
Found at i:4828786 original size:202 final size:203
Alignment explanation
Indices: 4828440--4829205 Score: 833
Period size: 202 Copynumber: 3.8 Consensus size: 203
4828430 CTCAAGACTA
4828440 ATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATT
1 ATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATT
* *
4828505 TGTTTTCTTTAAAACAAAGTTTGTCTCTCTAGAGACATTTTCTCTTAAAACAAATTTTGTCTCTC
66 AGTTTTCTTTAAAACAAAGTTTGTCTCTCTAGAGACATTTTCTCTTAAAACAAATTTTATCTCTC
*
4828570 TTGAGACGGTTTCCCTTGAAAC-AAAAACTTTGAATTTGTTTTCTTTGAAACAAAGTTTGTCTCT
131 TTGAGACAGTTTCCCTTGAAACAAAAAACTTTGAATTTGTTTTCTTTGAAACAAAGTTTGTCTCT
4828634 CTAGAGAC
196 CTAGAGAC
4828642 ATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATT
1 ATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATT
* *
4828707 AGTTTTCTTTGAAACAAAGTTTGTCTCTCTAGAGACATTTTCTCTTAAAA-AATTTTTTATCTCT
66 AGTTTTCTTTAAAACAAAGTTTGTCTCTCTAGAGACATTTTCTCTTAAAACAA-ATTTTATCTCT
4828771 CTTGAGACAGTTTCCCTTGAAACAAAAAAACTTTGAATTTGTTTTCTTTGAAACAAAGTTTGTCT
130 CTTGAGACAGTTTCCCTTGAAAC-AAAAAACTTTGAATTTGTTTTCTTTGAAACAAAGTTTGTCT
*
4828836 CTCTTGAGAC
194 CTCTAGAGAC
* * * * * *
4828846 ATTTTCTCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTCCCCTTGAAACAAAATCTTTTAATC
1 ATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATT
* * * * * * *
4828911 AGTTTTCCTTAAAACAAA-TTTCGTCTCCCTTGAGATAATTTCCCTTGAAACAAA----A--TCT
66 AGTTTTCTTTAAAACAAAGTTT-GTCTCTCTAGAGACATTTTCTCTTAAAACAAATTTTATCTCT
* * * *** ** *
4828969 -TTGA-ATCTGTTTTCCTTTAAACAAATTTCGTCTCTCTTGAGA-CAG-TTTCTTTTAGAACTAA
130 CTTGAGA-CAGTTTCCCTTGAAACAAA-----AAACT-TTGA-ATTTGTTTTCTTTGA-AAC-AA
* *
4829030 ATTTTGTCTCTCTTGAGAC
185 AGTTTGTCTCTCTAGAGAC
* * ** ** * *
4829049 GTTTTCTCGTAAAACAAATTTTGTCTCTCTTGAGATAGTTTATCTTGAAACAAAATCTATGAATC
1 ATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAAT-
* * * * * * * ** *
4829114 TA-TTTTCCTTGAAACAAA-TTGCGTCTCCCTTGAGACAGTTTCTTTTGGAACAAAATTTTGTCT
65 TAGTTTTCTTTAAAACAAAGTT-TGTCTCTCTAGAGACATTTTCTCTTAAAAC-AAATTTTATCT
* *
4829177 CTCTCGAGATAGTTTCCCTTGAAACAAAA
128 CTCTTGAGACAGTTTCCCTTGAAACAAAA
4829206 TCTATAAATC
Statistics
Matches: 483, Mismatches: 55, Indels: 48
0.82 0.09 0.08
Matches are distributed among these distances:
196 4 0.01
197 17 0.04
198 3 0.01
200 1 0.00
201 12 0.02
202 152 0.31
203 120 0.25
204 150 0.31
205 2 0.00
210 3 0.01
211 18 0.04
212 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (203 bp):
ATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAAAACTTTGAATT
AGTTTTCTTTAAAACAAAGTTTGTCTCTCTAGAGACATTTTCTCTTAAAACAAATTTTATCTCTC
TTGAGACAGTTTCCCTTGAAACAAAAAACTTTGAATTTGTTTTCTTTGAAACAAAGTTTGTCTCT
CTAGAGAC
Found at i:4828927 original size:65 final size:65
Alignment explanation
Indices: 4828847--4829173 Score: 304
Period size: 65 Copynumber: 4.9 Consensus size: 65
4828837 TCTTGAGACA
* *
4828847 TTTTCTCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTCCCCTTGAAACAAAATCTTTTAATCA
1 TTTTC-CTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCA
4828912 G
65 G
* * * *
4828913 TTTTCCTTAAAACAAATTTCGTCTCCCTTGAGATAATTTCCCTTGAAACAAAATCTTTGAATCTG
1 TTTTCCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCAG
* * * *
4828978 TTTTCCTTTAAACAAATTTCGTCTCTCTTGAGACAGTTT-CTTTTAGAACTAAATTTTGTCTCTC
1 TTTTCCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGA-AAC-AAA------ATCT-
4829042 TTGAGA-C-G
57 TTGA-ATCAG
* * * ** *
4829050 TTTTCTCGTAAAACAAATTTTGTCTCTCTTGAGATAGTTTATCTTGAAACAAAATCTATGAATCT
1 TTTTC-CTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATC-
4829115 A-
64 AG
* * * ** *
4829116 TTTTCCTTGAAACAAATTGCGTCTCCCTTGAGACAGTTTCTTTTGGAACAAAAT-TTTG
1 TTTTCCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTG
4829174 TCTCTCTCGA
Statistics
Matches: 214, Mismatches: 32, Indels: 32
0.77 0.12 0.12
Matches are distributed among these distances:
64 8 0.04
65 136 0.64
66 16 0.07
72 12 0.06
73 38 0.18
74 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (65 bp):
TTTTCCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCAG
Found at i:4829041 original size:37 final size:35
Alignment explanation
Indices: 4828979--4829089 Score: 134
Period size: 37 Copynumber: 3.1 Consensus size: 35
4828969 TTGAATCTGT
* *
4828979 TTTCCTTTAAACAAATTTCGTCTCTCTTGAGACAG
1 TTTCTTTTAAACAAATTTTGTCTCTCTTGAGACAG
4829014 TTTCTTTTAGAACTAAATTTTGTCTCTCTTGAGAC-G
1 TTTCTTTTA-AAC-AAATTTTGTCTCTCTTGAGACAG
* * *
4829050 TTTTCTCGTAAAACAAATTTTGTCTCTCTTGAGATAG
1 -TTTCT-TTTAAACAAATTTTGTCTCTCTTGAGACAG
4829087 TTT
1 TTT
4829090 ATCTTGAAAC
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
35 8 0.12
36 27 0.41
37 29 0.44
38 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTCTTTTAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:4829096 original size:138 final size:137
Alignment explanation
Indices: 4828912--4829185 Score: 413
Period size: 138 Copynumber: 2.0 Consensus size: 137
4828902 CTTTTAATCA
* * *
4828912 GTTTTCCTTAAAACAAATTTCGTCTCCCTTGAGATAATTTCCCTTGAAACAAAATCTTTGAATCT
1 GTTTTCCGTAAAACAAATTTCGTCTCCCTTGAGATAATTTACCTTGAAACAAAATCTATGAATCT
* * * * *
4828977 GTTTTCCTTTAAACAAATTTCGTCTCTCTTGAGACAGTTTCTTTTAGAACTAAATTTTGTCTCTC
66 ATTTTCCTTGAAACAAATTGCGTCTCCCTTGAGACAGTTTCTTTTAGAACAAAATTTTGTCTCTC
*
4829042 TTGAGAC
131 TCGAGAC
* * * *
4829049 GTTTTCTCGTAAAACAAATTTTGTCTCTCTTGAGATAGTTTATCTTGAAACAAAATCTATGAATC
1 GTTTTC-CGTAAAACAAATTTCGTCTCCCTTGAGATAATTTACCTTGAAACAAAATCTATGAATC
*
4829114 TATTTTCCTTGAAACAAATTGCGTCTCCCTTGAGACAGTTTCTTTTGGAACAAAATTTTGTCTCT
65 TATTTTCCTTGAAACAAATTGCGTCTCCCTTGAGACAGTTTCTTTTAGAACAAAATTTTGTCTCT
4829179 CTCGAGA
130 CTCGAGA
4829186 TAGTTTCCCT
Statistics
Matches: 122, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
137 6 0.05
138 116 0.95
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (137 bp):
GTTTTCCGTAAAACAAATTTCGTCTCCCTTGAGATAATTTACCTTGAAACAAAATCTATGAATCT
ATTTTCCTTGAAACAAATTGCGTCTCCCTTGAGACAGTTTCTTTTAGAACAAAATTTTGTCTCTC
TCGAGAC
Found at i:4829177 original size:37 final size:37
Alignment explanation
Indices: 4829120--4829206 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 37
4829110 AATCTATTTT
** *
4829120 CCTTGAAAC-AAATTGCGTCTCCCTTGAGACAGTTTC
1 CCTTGAAACAAAATTTTGTCTCCCTCGAGACAGTTTC
** * * *
4829156 TTTTGGAACAAAATTTTGTCTCTCTCGAGATAGTTTC
1 CCTTGAAACAAAATTTTGTCTCCCTCGAGACAGTTTC
4829193 CCTTGAAACAAAAT
1 CCTTGAAACAAAAT
4829207 CTATAAATCT
Statistics
Matches: 39, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
36 6 0.15
37 33 0.85
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (37 bp):
CCTTGAAACAAAATTTTGTCTCCCTCGAGACAGTTTC
Found at i:4829834 original size:96 final size:98
Alignment explanation
Indices: 4829670--4829870 Score: 381
Period size: 96 Copynumber: 2.1 Consensus size: 98
4829660 CATAATAGAT
4829670 TAGGG-TTTCCAAAACCCTAAACATCTTCTGCCCCAACCGCTAAGTGCCTCAACCATTGGATCAA
1 TAGGGTTTTCCAAAACCCTAAACATCTTCTGCCCCAACCGCTAAGTGCCTCAACCATTGGATCAA
4829734 TATGTGATCCAATGGACCACAGTA-GAGCCGGA
66 TATGTGATCCAATGGACCACAGTATGAGCCGGA
4829766 TAGGGTTTTCC-AAACCCTAAACATCTTCTGCCCCAACCGCTAAGTGCCTCAACCATTGGATCAA
1 TAGGGTTTTCCAAAACCCTAAACATCTTCTGCCCCAACCGCTAAGTGCCTCAACCATTGGATCAA
4829830 TATGTGATCCAATGGACCACAGTATGAGCCGGA
66 TATGTGATCCAATGGACCACAGTATGAGCCGGA
4829863 TAGGGTTT
1 TAGGGTTT
4829871 CATCCCTTCT
Statistics
Matches: 103, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
96 82 0.80
97 21 0.20
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (98 bp):
TAGGGTTTTCCAAAACCCTAAACATCTTCTGCCCCAACCGCTAAGTGCCTCAACCATTGGATCAA
TATGTGATCCAATGGACCACAGTATGAGCCGGA
Found at i:4832106 original size:13 final size:13
Alignment explanation
Indices: 4832090--4832121 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4832080 TATGCATATT
4832090 ATATATGAAAAAA
1 ATATATGAAAAAA
*
4832103 ATATATGAAAAAT
1 ATATATGAAAAAA
4832116 ATATAT
1 ATATAT
4832122 TAATGTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (13 bp):
ATATATGAAAAAA
Found at i:4833449 original size:16 final size:18
Alignment explanation
Indices: 4833419--4833457 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
4833409 TTAAATATTA
4833419 TTTTA-AATAATTAAT-T
1 TTTTACAATAATTAATAT
4833435 TTTTACAATAA-TAATAT
1 TTTTACAATAATTAATAT
4833452 TTTTAC
1 TTTTAC
4833458 CTCATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTACAATAATTAATAT
Found at i:4834190 original size:2 final size:2
Alignment explanation
Indices: 4834183--4834242 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
4834173 ATGATGGCAT
4834183 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4834225 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
4834243 AAGAATGATT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4838895 original size:18 final size:17
Alignment explanation
Indices: 4838864--4838919 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
4838854 GATAATACAA
4838864 AATAATTATATAATAAT
1 AATAATTATATAATAAT
*
4838881 AATAATTTTATTAATAAT
1 AATAATTATA-TAATAAT
*
4838899 -ATATATATATATAATATT
1 AATA-AT-TATATAATAAT
4838917 AAT
1 AAT
4838920 GGGACAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 12 0.38
18 15 0.47
19 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATAATTATATAATAAT
Found at i:4839291 original size:80 final size:81
Alignment explanation
Indices: 4839070--4839317 Score: 349
Period size: 82 Copynumber: 3.1 Consensus size: 81
4839060 AGGGTAAATC
** *
4839070 AGACTTGATATGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACTTGTCTGCTCCACTC
1 AGACTTGATATGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGAGTATGCTCCACTC
*
4839135 TTCTTTCAGGGGAGATCA
66 TTCTTTCA-GAGAGAT-A
* * * *
4839153 A-ACTTGATATGTTCCTCTTTTTCAGGTAGTCAGATCAATTTTGGAAGACGGGTTTGCTCAACTC
1 AGACTTGATATGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGAGTATGCTCCACTC
* *
4839217 TTATTTTAGAGAGATA
66 TTCTTTCAGAGAGATA
*
4839233 AGACTTGATATGTTCCT-TTTTTCGGGTAGTCAGATCAATTTTGGAAAACGAGTATGCTCCACTC
1 AGACTTGATATGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGAGTATGCTCCACTC
4839297 TTCTTTCA-AGGAGATA
66 TTCTTTCAGA-GAGATA
4839313 AGACT
1 AGACT
4839318 CGAGGATTTT
Statistics
Matches: 148, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
79 1 0.01
80 61 0.41
81 21 0.14
82 64 0.43
83 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (81 bp):
AGACTTGATATGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGAGTATGCTCCACTC
TTCTTTCAGAGAGATA
Found at i:4840209 original size:80 final size:78
Alignment explanation
Indices: 4840113--4840582 Score: 445
Period size: 80 Copynumber: 5.9 Consensus size: 78
4840103 AATAATACTT
*
4840113 AAAGATTGACTCCTCTTCACGA-GAGAGTCAAAAATAACATTGAAAGATTGACTTCTCTTCACGA
1 AAAGATTGACTCCTCTTCACGAGGA-AGTCAAGAATAACA-T-AAAGATTGACTTCTCTTCACGA
*
4840177 GGGAGTCAAGAATAAC
63 GGAAGTCAAGAATAAC
* * * * *
4840193 AAAGATTGACTTCTCTTTATGAGGAAGTCAAGAATAACTTTGAAAGATTGAC-TCTTCTTCGCGA
1 AAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAAC-AT-AAAGATTGACTTC-TCTTCACGA
* *
4840257 GGGAGTCAGGAATAAC
63 GGAAGTCAAGAATAAC
* * * *
4840273 AAAGATTGACTTCTCTTTACGAGGAAGTCAAGAATAAC--AAAGATCGATTTCTCTTCACGAGGA
1 AAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAACATAAAGATTGACTTCTCTTCACGAGGA
4840336 AGTCAAGAATAAC
66 AGTCAAGAATAAC
* * * * *
4840349 ATTGAAAGATTGACTCCTCTTCACGAGGGAGTCGAGAAT-A-ATAAAGATTAAATTCTTTTCACG
1 ----AAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAACATAAAGATTGACTTCTCTTCACG
4840412 AGGAAGTCAAGAATAAC
62 AGGAAGTCAAGAATAAC
* ** * * * * *
4840429 ATTGAAAGATTGACTCCTTTTTGCGAGGGAGTCAGGAATAAC--AAAGATTAACTTCTCTTTATG
1 ----AAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAACATAAAGATTGACTTCTCTTCACG
4840492 AGGAAGTCAAGAATAAC
62 AGGAAGTCAAGAATAAC
* * * *
4840509 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAATATTGA-TTCCTCTTCGCGA
1 AAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAACA-T-AAAGATTGACTT-CTCTTCACGA
*
4840573 GGGAGTCAAG
63 GGAAGTCAAG
4840583 TTGAAGCTTC
Statistics
Matches: 330, Mismatches: 43, Indels: 34
0.81 0.11 0.08
Matches are distributed among these distances:
76 61 0.18
77 2 0.01
79 5 0.02
80 259 0.78
81 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.26
Consensus pattern (78 bp):
AAAGATTGACTCCTCTTCACGAGGAAGTCAAGAATAACATAAAGATTGACTTCTCTTCACGAGGA
AGTCAAGAATAAC
Found at i:4840312 original size:118 final size:117
Alignment explanation
Indices: 4840100--4840547 Score: 517
Period size: 118 Copynumber: 3.8 Consensus size: 117
4840090 TAAAGTTAAG
* *
4840100 AAGAATAATACTT-AAAGATTGACTCCTCTTCACGAGAGAGTCAAAAATAACATTGAAAGATTGA
1 AAGAAT-A-ACTTGAAAGATTGACTCCTCTTCACGAGGGAGTCAAGAATAAC----AAAGATTGA
* *
4840164 CTTCTCTTCACGAGGGAGTCAAGAATAACAAAGATTGACTTCTCTTTATGAGGAAGTC
60 CTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTTACGAGGAAGTC
* * *
4840222 AAGAATAACTTTGAAAGATTGACTCTTCTTCGCGAGGGAGTCAGGAATAACAAAGATTGACTTCT
1 AAGAATAAC-TTGAAAGATTGACTCCTCTTCACGAGGGAGTCAAGAATAACAAAGATTGACTTCT
* * * *
4840287 CTTTACGAGGAAGTCAAGAATAACAAAGATCGATTTCTCTTCACGAGGAAGTC
65 CTTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTTACGAGGAAGTC
* * * *
4840340 AAGAATAACATTGAAAGATTGACTCCTCTTCACGAGGGAGTCGAGAATAATAAAGATTAAATTCT
1 AAGAATAAC-TTGAAAGATTGACTCCTCTTCACGAGGGAGTCAAGAATAACAAAGATTGACTTCT
* * * * *
4840405 TTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTTTTTGCGAGGGAGTC
65 CTTCACGAGGAAGTCAAGAATAAC----AAAGATTGACTTCTCTTTACGAGGAAGTC
* * * * * * *
4840462 AGGAATAAC---AAAGATTAACTTCTCTTTATGAGGAAGTCAAGAATAACAAAGATCGACTTCTC
1 AAGAATAACTTGAAAGATTGACTCCTCTTCACGAGGGAGTCAAGAATAACAAAGATTGACTTCTC
4840524 TTCACGAGGAAGTCAAGAATAACA
66 TTCACGAGGAAGTCAAGAATAACA
4840548 TTGAAATATT
Statistics
Matches: 280, Mismatches: 40, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
114 1 0.00
118 205 0.73
120 2 0.01
121 3 0.01
122 69 0.25
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (117 bp):
AAGAATAACTTGAAAGATTGACTCCTCTTCACGAGGGAGTCAAGAATAACAAAGATTGACTTCTC
TTCACGAGGAAGTCAAGAATAACAAAGATTGACTTCTCTTTACGAGGAAGTC
Found at i:4840354 original size:198 final size:198
Alignment explanation
Indices: 4840113--4840582 Score: 732
Period size: 198 Copynumber: 2.4 Consensus size: 198
4840103 AATAATACTT
* * *
4840113 AAAGATTGACTCCTCTTCACGA-GAGAGTCAAAAATAACATTGAAAGATTGACTTCTCTTCACGA
1 AAAGATCGACTTCTCTTCACGAGGA-AGTCAAGAATAACATTGAAAGATTGACTTCTCTTCACGA
* * * *
4840177 GGGAGTCAAGAATAACAAAGATTGACTTCTCTTT-ATGAGGAAGTCAAGAATAACTTTGAAAGAT
65 GGGAGTCAAGAATAACAAAGATTAAATTCT-TTTCACGAGGAAGTCAAGAATAACATTGAAAGAT
*
4840241 TGACT-CTTCTTCGCGAGGGAGTCAGGAATAACAAAGATTGACTTCTCTTTACGAGGAAGTCAAG
129 TGACTCCTT-TTCGCGAGGGAGTCAGGAATAACAAAGATTAACTTCTCTTTACGAGGAAGTCAAG
4840305 AATAAC
193 AATAAC
* *
4840311 AAAGATCGATTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACGAG
1 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTTCTCTTCACGAG
* *
4840376 GGAGTCGAGAATAATAAAGATTAAATTCTTTTCACGAGGAAGTCAAGAATAACATTGAAAGATTG
66 GGAGTCAAGAATAACAAAGATTAAATTCTTTTCACGAGGAAGTCAAGAATAACATTGAAAGATTG
* *
4840441 ACTCCTTTTTGCGAGGGAGTCAGGAATAACAAAGATTAACTTCTCTTTATGAGGAAGTCAAGAAT
131 ACTCCTTTTCGCGAGGGAGTCAGGAATAACAAAGATTAACTTCTCTTTACGAGGAAGTCAAGAAT
4840506 AAC
196 AAC
* *
4840509 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAATATTGA-TTCCTCTTCGCGA
1 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTT-CTCTTCACGA
4840573 GGGAGTCAAG
65 GGGAGTCAAG
4840583 TTGAAGCTTC
Statistics
Matches: 249, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
197 4 0.02
198 240 0.96
199 5 0.02
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.26
Consensus pattern (198 bp):
AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTTCTCTTCACGAG
GGAGTCAAGAATAACAAAGATTAAATTCTTTTCACGAGGAAGTCAAGAATAACATTGAAAGATTG
ACTCCTTTTCGCGAGGGAGTCAGGAATAACAAAGATTAACTTCTCTTTACGAGGAAGTCAAGAAT
AAC
Found at i:4841453 original size:249 final size:249
Alignment explanation
Indices: 4841014--4841755 Score: 1033
Period size: 250 Copynumber: 3.0 Consensus size: 249
4841004 ATCTGATAAT
* * * * * * ***
4841014 CCAATTTTGGAAATAGTTTACTGGATAAGAAAATTTGGAAATCACTTTCTTACTTTTTAATGGTT
1 CCAATTTGGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATT
*
4841079 TCATTT-TATGAAAATGAGAAACTTTGGAAATCGCTTTCTTATTTTTCAAATTCATGTGAAAACA
66 TCATTTCTA--AAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAATTCATGTGAAAACA
* * * * *
4841143 TCCTACCTGAAGGTCTTACGGACGACCCGATGGACTTATCATCCTGCTCGAAAGACTGACAGATG
129 TCCTACCCGAAGGTCTTACGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATG
* * * *
4841208 ACCTGAAGGATTCAATCATCATACTCGAAAGGA-TTATTGATGGCCCGAAGGAGTTA
194 ACCCGAAGGATTTAATCATCATGCTCGAAA-GACTTATTGATGGCCCGAAGGAATTA
* * *
4841264 CCAATTTGGGAAATAATTTAATGGGTAAGAAACTTTGGAAATCGTTTTTTTACTTTTCAAAAATT
1 CCAATTTGGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATT
* * *
4841329 TCATTTCTAAAAATGAGAAACTTTGGAATTCGCTTTCTCATTTATCAAATTCATGTAAAAACATC
66 TCATTTCTAAAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAATTCATGTGAAAACATC
* *
4841394 CTACCCGAAGGTCTTATGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGAC
131 CTACCCGAAGGTCTTACGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGAC
*
4841459 CCGAAGGATTTAATCATCATGCTCGAAAGACTT-TCTGATGGCTCGAAGGAATTA
196 CCGAAGGATTTAATCATCATGCTCGAAAGACTTAT-TGATGGCCCGAAGGAATTA
** * * * *
4841513 CCAAAATGGTAAATAATTTACT-GGTAATAAACTTTGGAAATTCGCTTTCTTACTTATCAAAATT
1 CCAATTTGGGAAATAATTTACTGGGTAAGAAACTTTGGAAA-TCGCTTTCTTACTTTTCAAAAAT
* *
4841577 TTCATTTTCTTAAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTCATGTGAAAACA
65 TTCA-TTTCTAAAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAATTCATGTGAAAACA
* * * *
4841642 TCCTACCCGAAGGTATTACGGATGGCCCGAATGACTTATCATCTTACTCGAAAGACTGATAGATG
129 TCCTACCCGAAGGTCTTACGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATG
*
4841707 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAA
194 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTATTGATGGCCCGAA
4841756 TGACTTACTA
Statistics
Matches: 436, Mismatches: 50, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
248 20 0.05
249 195 0.45
250 219 0.50
251 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (249 bp):
CCAATTTGGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATT
TCATTTCTAAAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAATTCATGTGAAAACATC
CTACCCGAAGGTCTTACGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGAC
CCGAAGGATTTAATCATCATGCTCGAAAGACTTATTGATGGCCCGAAGGAATTA
Found at i:4841506 original size:42 final size:41
Alignment explanation
Indices: 4841412--4841508 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 41
4841402 AGGTCTTATG
* *
4841412 GATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGACA
1 GATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTGACA
* * ** *
4841453 GATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTTCT
1 GATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGACTGACA
*
4841495 GATGGCTCGAAGGA
1 GATGGCCCGAAGGA
4841509 ATTACCAAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 14 0.30
42 32 0.70
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTGACA
Found at i:4841726 original size:42 final size:41
Alignment explanation
Indices: 4841662--4841762 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 41
4841652 AGGTATTACG
* * *
4841662 GATGGCCCGAATGACTTATCATCTTACTCGAAAGACTGATA
1 GATGACCCGAAGGACTTATCATCATACTCGAAAGACTGATA
* * *
4841703 GATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACT-
1 GATGACCCGAAGGACTT-ATCATCATACTCGAAAGACTGA-TA
* *
4841745 GATGGCCCGAATGACTTA
1 GATGACCCGAAGGACTTA
4841763 CTAACTAAGC
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 15 0.31
42 33 0.67
43 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (41 bp):
GATGACCCGAAGGACTTATCATCATACTCGAAAGACTGATA
Found at i:4842567 original size:25 final size:23
Alignment explanation
Indices: 4842539--4842598 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
4842529 TTGCAAAAAA
4842539 TTGAAAAATATCAATTAAAAGAATT
1 TTGAAAAATATCAA-TAAAA-AATT
* *
4842564 TTGAAAAATATTTAATCAAAAATT
1 TTGAAAAATA-TCAATAAAAAATT
4842588 TTGAAAAATAT
1 TTGAAAAATAT
4842599 TTTCCCTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 1 0.03
24 14 0.44
25 14 0.44
26 3 0.09
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (23 bp):
TTGAAAAATATCAATAAAAAATT
Found at i:4845166 original size:11 final size:11
Alignment explanation
Indices: 4845152--4845193 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
4845142 TTCAAAGATA
4845152 AAAAAAAGAAG
1 AAAAAAAGAAG
**
4845163 AAAAAAATCAG
1 AAAAAAAGAAG
4845174 AAAAAAAGAAG
1 AAAAAAAGAAG
*
4845185 AGAAAAAGA
1 AAAAAAAGA
4845194 GAATTTCAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (11 bp):
AAAAAAAGAAG
Found at i:4848467 original size:16 final size:16
Alignment explanation
Indices: 4848446--4848486 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
4848436 TTAGGACACT
4848446 TCAAATTTTTCCTAAG
1 TCAAATTTTTCCTAAG
4848462 TCAAATTTTTCCTAAG
1 TCAAATTTTTCCTAAG
4848478 TCAAATTTT
1 TCAAATTTT
4848487 GTGAAATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.32, C:0.17, G:0.05, T:0.46
Consensus pattern (16 bp):
TCAAATTTTTCCTAAG
Found at i:4849146 original size:164 final size:166
Alignment explanation
Indices: 4848948--4849277 Score: 646
Period size: 164 Copynumber: 2.0 Consensus size: 166
4848938 AAGGGTTAGC
4848948 CGAACCAACACCAAGCTTAAGGACATATCTCTTCATTCAATTAATTATGTATTTTCATTAATAGA
1 CGAACCAACACCAAGCTTAAGGACATATCTCTTCATTCAATTAATTATGTATTTTCATTAATAGA
4849013 CATGTACCTAGCCGAAACACTATGTAACCATTATGCCAAGCCCTCTCATTTCCTATAAATTGAGA
66 CATGTACCTAGCCGAAACACTATGTAACCATTATGCCAAGCCCTCTCATTTCCTATAAATTGAGA
4849078 GGCTTG-CATCATTTGTACTTA-CTATTTCATATTA
131 GGCTTGCCATCATTTGTACTTATCTATTTCATATTA
4849112 CGAACCAACACCAAGCTTAAGGACATATCTCTTCATTCAATTAATTATGTATTTTCATTAATAGA
1 CGAACCAACACCAAGCTTAAGGACATATCTCTTCATTCAATTAATTATGTATTTTCATTAATAGA
4849177 CATGTACCTAGCCGAAACACTATGTAACCATTATGCCAAGCCCTCTCATTTCCTATAAATTGAGA
66 CATGTACCTAGCCGAAACACTATGTAACCATTATGCCAAGCCCTCTCATTTCCTATAAATTGAGA
4849242 GGCTTGCCATCATTTGTACTTATCTATTTCATATTA
131 GGCTTGCCATCATTTGTACTTATCTATTTCATATTA
4849278 TAAACAAACC
Statistics
Matches: 164, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
164 136 0.83
165 15 0.09
166 13 0.08
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (166 bp):
CGAACCAACACCAAGCTTAAGGACATATCTCTTCATTCAATTAATTATGTATTTTCATTAATAGA
CATGTACCTAGCCGAAACACTATGTAACCATTATGCCAAGCCCTCTCATTTCCTATAAATTGAGA
GGCTTGCCATCATTTGTACTTATCTATTTCATATTA
Found at i:4849621 original size:27 final size:27
Alignment explanation
Indices: 4849590--4849643 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
4849580 CCGCGGTCAT
4849590 CTCTTTCATTTCTTTTCATTTCATTAC
1 CTCTTTCATTTCTTTTCATTTCATTAC
4849617 CTCTTTCATTTCTTTTCATTTCATTAC
1 CTCTTTCATTTCTTTTCATTTCATTAC
4849644 TTTTATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.26, G:0.00, T:0.59
Consensus pattern (27 bp):
CTCTTTCATTTCTTTTCATTTCATTAC
Found at i:4849988 original size:10 final size:9
Alignment explanation
Indices: 4849973--4850080 Score: 67
Period size: 9 Copynumber: 11.3 Consensus size: 9
4849963 ATTTGATTTA
4849973 TTTTTTCTCT
1 TTTTTTCT-T
4849983 TTTTTTCTT
1 TTTTTTCTT
4849992 TTTTTTCTT
1 TTTTTTCTT
4850001 TTTCGTCTTCTT
1 TTT--T-TTCTT
* *
4850013 CTTTTTCTA
1 TTTTTTCTT
*
4850022 TCTTTTCTT
1 TTTTTTCTT
4850031 ATTTTTTC--
1 -TTTTTTCTT
* *
4850039 CTTCTTCTT
1 TTTTTTCTT
*
4850048 TTTCTATTCTC
1 TTT-T-TTCTT
4850059 TTTTTTCTT
1 TTTTTTCTT
*
4850068 TTCTCTTCTT
1 TT-TTTTCTT
4850078 TTT
1 TTT
4850081 ATCTCTATAT
Statistics
Matches: 76, Mismatches: 13, Indels: 19
0.70 0.12 0.18
Matches are distributed among these distances:
7 5 0.07
9 32 0.42
10 24 0.32
11 8 0.11
12 7 0.09
ACGTcount: A:0.03, C:0.20, G:0.01, T:0.76
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:4850043 original size:32 final size:31
Alignment explanation
Indices: 4849970--4850080 Score: 108
Period size: 30 Copynumber: 3.7 Consensus size: 31
4849960 AATATTTGAT
* *
4849970 TTATTTTTTC-TCTT-TTTTTCTTTTTTTTC
1 TTATTTTTTCTTCTTCTTTTTCTATCTTTTC
**
4849999 TT-TTTCGTCTTCTTCTTTTTCTATCTTTTC
1 TTATTTTTTCTTCTTCTTTTTCTATCTTTTC
4850029 TTATTTTTTCCTTCTTCTTTTTCTATTCTCTTT-
1 TTATTTTTT-CTTCTTCTTTTTCTA-TCT-TTTC
*
4850062 TT-TCTTTTC-TCTTCTTTTT
1 TTATTTTTTCTTCTTCTTTTT
4850081 ATCTCTATAT
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
28 5 0.07
29 6 0.09
30 25 0.36
31 5 0.07
32 20 0.29
33 5 0.07
34 3 0.04
ACGTcount: A:0.04, C:0.20, G:0.01, T:0.76
Consensus pattern (31 bp):
TTATTTTTTCTTCTTCTTTTTCTATCTTTTC
Found at i:4850064 original size:14 final size:14
Alignment explanation
Indices: 4850046--4850079 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4850036 TTCCTTCTTC
4850046 TTTTTCTATTCTCT
1 TTTTTCTATTCTCT
*
4850060 TTTTTCTTTTCTCT
1 TTTTTCTATTCTCT
4850074 TCTTTT
1 T-TTTT
4850080 TATCTCTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTCTATTCTCT
Found at i:4851687 original size:28 final size:28
Alignment explanation
Indices: 4851647--4851702 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
4851637 TGCAAGAGGT
4851647 GTCATTCCAGAGTGACCATCTTAAAACA
1 GTCATTCCAGAGTGACCATCTTAAAACA
*
4851675 GTCATTTCAGAGTGACCATCTTAAAACA
1 GTCATTCCAGAGTGACCATCTTAAAACA
4851703 ATTTTCATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (28 bp):
GTCATTCCAGAGTGACCATCTTAAAACA
Found at i:4857246 original size:23 final size:23
Alignment explanation
Indices: 4857220--4857263 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
4857210 CATATAAAGT
* *
4857220 AACATCTTCACGAATGTTAAACG
1 AACATCTTCACAAACGTTAAACG
*
4857243 AACATGTTCACAAACGTTAAA
1 AACATCTTCACAAACGTTAAA
4857264 TAAACCGAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.25
Consensus pattern (23 bp):
AACATCTTCACAAACGTTAAACG
Found at i:4864347 original size:31 final size:32
Alignment explanation
Indices: 4864312--4864379 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
4864302 CATTTTTTTG
* * *
4864312 TTAAATTATATATTT-AAA-TATATTTTATAGT
1 TTAAATTAGATATTTGAAACT-GATTTTATAAT
4864343 TTAAA-TAGATATTTGAAACTGATTTTATAAT
1 TTAAATTAGATATTTGAAACTGATTTTATAAT
4864374 TTAAAT
1 TTAAAT
4864380 AAATTATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
30 8 0.26
31 22 0.71
32 1 0.03
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (32 bp):
TTAAATTAGATATTTGAAACTGATTTTATAAT
Found at i:4864879 original size:18 final size:17
Alignment explanation
Indices: 4864849--4864884 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
4864839 GGATAGAGTA
4864849 TATAAATAATATTTTAT
1 TATAAATAATATTTTAT
*
4864866 TATAGAATATTATTTTAT
1 TATA-AATAATATTTTAT
4864884 T
1 T
4864885 GAGTCCCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TATAAATAATATTTTAT
Found at i:4865148 original size:28 final size:28
Alignment explanation
Indices: 4865108--4865175 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
4865098 ATTATTGTTG
*
4865108 CTTTCAAGCACTGGTTTGGCAGCATAAT
1 CTTTCAAGCACTGGTTTAGCAGCATAAT
4865136 CTTTCAAGCACTGGTTTAGCAGCATAAT
1 CTTTCAAGCACTGGTTTAGCAGCATAAT
*
4865164 GTTTCAAGCACT
1 CTTTCAAGCACT
4865176 AGTTCGACGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (28 bp):
CTTTCAAGCACTGGTTTAGCAGCATAAT
Found at i:4866221 original size:39 final size:38
Alignment explanation
Indices: 4866155--4866334 Score: 253
Period size: 39 Copynumber: 4.8 Consensus size: 38
4866145 ATATATACAT
4866155 ATATATATATATATATAGTTTTT-AAAACATTTTGAAAAA
1 ATATATATA-ATATATAGTTTTTGAAAACATTTTG-AAAA
*
4866194 ATATATATAATATATAGTTTTTGAAAACATTTTTAAAA
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAAA
*
4866232 ATTATATATAATATATAGTTTTTGAAAACATTTTGATAA
1 A-TATATATAATATATAGTTTTTGAAAACATTTTGAAAA
*
4866271 CT-TATATAATATATAG-TTTTGAAAACATTTTGAAAA
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAAA
* *
4866307 CT-TATATGATATATAG-TTTTGAAAACAT
1 ATATATATAATATATAGTTTTTGAAAACAT
4866335 ATATCATATA
Statistics
Matches: 133, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
36 46 0.35
37 14 0.11
38 19 0.14
39 54 0.41
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (38 bp):
ATATATATAATATATAGTTTTTGAAAACATTTTGAAAA
Found at i:4866326 original size:25 final size:25
Alignment explanation
Indices: 4866298--4866356 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
4866288 TTTGAAAACA
* *
4866298 TTTTGAAAACTTATATGATATATAG
1 TTTTGAAAACATATATCATATATAG
4866323 TTTTGAAAACATATATCATATATAG
1 TTTTGAAAACATATATCATATATAG
4866348 TTTT-AAAAC
1 TTTTGAAAAC
4866357 GTTTTTGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 5 0.16
25 27 0.84
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.42
Consensus pattern (25 bp):
TTTTGAAAACATATATCATATATAG
Found at i:4866344 original size:61 final size:61
Alignment explanation
Indices: 4866262--4866394 Score: 189
Period size: 61 Copynumber: 2.2 Consensus size: 61
4866252 TTTGAAAACA
* * * *
4866262 TTTTGATAACTTATATAATATATAGTTTTGAAAAC-ATTTTGAAAACTTATATGATATATAG
1 TTTTGAAAACATATATAATATATAGTTTT-AAAACGATTTTGAAAACATATATAATATATAG
* *
4866323 TTTTGAAAACATATATCATATATAGTTTTAAAACGTTTTTGAAAACATATATAATATATAG
1 TTTTGAAAACATATATAATATATAGTTTTAAAACGATTTTGAAAACATATATAATATATAG
4866384 TTTT-AAAACAT
1 TTTTGAAAACAT
4866395 TTTGAAAACT
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
60 12 0.18
61 53 0.82
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (61 bp):
TTTTGAAAACATATATAATATATAGTTTTAAAACGATTTTGAAAACATATATAATATATAG
Found at i:4866363 original size:36 final size:35
Alignment explanation
Indices: 4866323--4866451 Score: 152
Period size: 36 Copynumber: 3.9 Consensus size: 35
4866313 TGATATATAG
* *
4866323 TTTTGAAAACATATATCATATATAGTTTTAAAACGT
1 TTTTGAAAACATATATAATATATAGTTTTAAAAC-A
4866359 TTTTGAAAACATATATAATATATAGTTTTAAAACA
1 TTTTGAAAACATATATAATATATAGTTTTAAAACA
*
4866394 TTTTGAAAAC-TA-AT-A-ATAT--TTTTGAAA-A
1 TTTTGAAAACATATATAATATATAGTTTTAAAACA
4866422 TTTT-AAAA-AT-TATAATATATAGTTTTAAAA
1 TTTTGAAAACATATATAATATATAGTTTTAAAA
4866452 TTTTAAAAAA
Statistics
Matches: 83, Mismatches: 4, Indels: 17
0.80 0.04 0.16
Matches are distributed among these distances:
27 7 0.08
28 6 0.07
29 11 0.13
31 11 0.13
32 1 0.01
33 2 0.02
34 2 0.02
35 10 0.12
36 33 0.40
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.43
Consensus pattern (35 bp):
TTTTGAAAACATATATAATATATAGTTTTAAAACA
Found at i:4866440 original size:96 final size:96
Alignment explanation
Indices: 4866235--4866451 Score: 264
Period size: 96 Copynumber: 2.2 Consensus size: 96
4866225 TTTAAAAATT
* *
4866235 ATATATAATATATAGTTTTTGAAAACATTTTGATAACTTATATAATATATAGTTTTGAAAACATT
1 ATATATAATATATAG-TTTT-AAAACATTTTGAAAACATATATAATATATAGTTTTGAAAACATT
* *
4866300 TTGAAAACTTATATGATATATAGTTTTGAAAAC
64 TTGAAAACTTATATGATATAAAATTTTGAAAAC
* *
4866333 ATATATCATATATAGTTTTAAAACGTTTTTGAAAACATATATAATATATAGTTTT-AAAACATTT
1 ATATATAATATATAGTTTTAAAAC-ATTTTGAAAACATATATAATATATAGTTTTGAAAACATTT
* *
4866397 TGAAAACTAATAATAT-TTTTGAAAATTTT-AAAA-
65 TGAAAACT--T-ATATGATAT-AAAATTTTGAAAAC
4866430 AT-TATAATATATAGTTTTAAAA
1 ATATATAATATATAGTTTTAAAA
4866452 TTTTAAAAAA
Statistics
Matches: 105, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
96 41 0.39
97 33 0.31
98 21 0.20
99 10 0.10
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (96 bp):
ATATATAATATATAGTTTTAAAACATTTTGAAAACATATATAATATATAGTTTTGAAAACATTTT
GAAAACTTATATGATATAAAATTTTGAAAAC
Found at i:4866452 original size:30 final size:31
Alignment explanation
Indices: 4866323--4866471 Score: 128
Period size: 30 Copynumber: 4.7 Consensus size: 31
4866313 TGATATATAG
*
4866323 TTTTGAAAACATATATCATATATAGTTTTAAAA
1 TTTTGAAAA-AT-TATAATATATAGTTTTAAAA
4866356 CGTTTTTGAAAACATATATAATATATAGTTTTAAAACA
1 ---TTTTGAAAA-AT-TATAATATATAGTTTT-AAA-A
* * *
4866394 TTTTGAAAACTAATAATAT-T--TTTGAAAA
1 TTTTGAAAAATTATAATATATAGTTTTAAAA
4866422 TTTT-AAAAATTATAATATATAGTTTTAAAA
1 TTTTGAAAAATTATAATATATAGTTTTAAAA
* *
4866452 TTTT-AAAAAATATTATATAT
1 TTTTGAAAAATTATAATATAT
4866472 TTTATTTTTT
Statistics
Matches: 99, Mismatches: 9, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
27 12 0.12
28 6 0.06
29 3 0.03
30 28 0.28
32 1 0.01
33 7 0.07
34 1 0.01
35 9 0.09
36 28 0.28
37 3 0.03
38 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (31 bp):
TTTTGAAAAATTATAATATATAGTTTTAAAA
Done.